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Journal of Natural Sciences Research                                                                      www.iiste.org
ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
Vol.2, No.7, 2012



 Microbiological Examination and Antimicrobial Susceptibility of
 Microorganisms Isolated From Salt Mining Site in Ebonyi State
                        *Anyim C.1, Aneke C.J.2, Orji J.O. 1, Nworie O.1, and Egbule U.C.C. 1
         1
          Department of Applied Microbiology, Ebonyi State University, P.M.B. 053, Abakaliki, Nigeria.
2
  Department of Biochemistry, Enugu State University of Science and Technology, P.M.B. 1660, Enugu, Nigeria.
                   *Corresponding author Email: anyim5live@gmail.com. Tel.: +2347036347015
ABSTRACT
The microbial examination and antimicrobial susceptibility profile of microorganism isolated from salt mining site
in Ebonyi state was evaluated in the present study using standard microbiological technique. A total of 300
samples were randomly collected in three sample groups (A, B and C) of 100 each. Isolation, identification and
characterization of organisms present on the soil samples were determined by culturing, Gram-staining and
biochemical techniques. The result showed that the following organisms were isolated with their frequency as
follow: Bacillus species (37.3%) and Staphylococcus species (23.5%) had the highest frequency in whole sample
group A and B, while Klebsiella species (15.7%), Pseudomonas species (13.7%) and Erwinia species (9.8%), had
the least. Rhizopus species (42.0%) and Aspergillus species (26.0%) where the highest fungi isolated, followed by
Penicillum species (20.0%), while Mucor species (4.0%), and Fusarium species (8.0%) recorded the least. Sample
group C showed high microbial population of all the microbial isolates when compared to sample group A and B.
Disc diffusion method was used to determine the susceptibility of isolated bacteria to various antibiotics
(ofloxacin, pefloxacin, ciprorex, augumentin, gentamycin, ciproflox, septrin, ampicillin), while agar well diffusion
method was used to determine the susceptibility of isolated fungi to some antifungal drugs (metronidazole,
ketoconazole, itraconazole, fluconazole). The antibacterial activity of the antibiotics used showed that ciproflox
has the best inhibitory effect on all the bacteria isolates, followed by augmentin, while septrin and gentamycin
showed no inhibitory effect on all the test bacteria. Ketoconazole showed the highest inhibitory effect on the
fungal isolates, followed by itraconazole, while metronidazole and fluconazole showed the least inhibitory effect
on the entire test fungal isolates. Hence multiple drug resistance of most isolates to appropriate drugs of choice are
of great public health concern and calls for periodic monitoring of antibiograms to detect possible changing
patterns. Microbes isolated in the salt mining site can also be used as a source of gene(s) that can increase salt
tolerance in different crop species through genetic engineering.
Keywords: Microorganisms, antibacterial, antifungal, resistance, salt mining site, Ebonyi State.
INTRODUCTION
      Salt, also known as table salt, or rock salt, is a crystalline mineral that is composed primarily of sodium
chloride (NaCl), a chemical compound belonging to the larger class of ionic salts. It is essential for animal life in
small quantities, but is harmful to animals and plants in excess. Salt is one of the oldest, most ubiquitous food
seasonings and salting is an important method of food preservation. The taste of salt (saltiness) is one of the basic
human tastes (Caldwell et al., 2000). Salt is obtained from two sources: rock salt and brine. Rock salt is simply
crystallized salt, also known as halite. It is the result of the evaporation of ancient oceans millions of years ago.
Brine is water containing a high concentration of salt (McCarron et al., 2009). Large deposits of rock salt are found
in Nigeria; rock salt is available in Benue State, while salt springs found at Awe (Plateau State), Uburu (Imo State)
and in Okposi Okwu and Uburu (Ebonyi State) (Okaji, 2009 and ION, 2010). Ebonyi is the second largest
small-scale salt producing areas in Nigeria. The small-scale salt production in Okposi and Uburu has continued for
about 400 years ago (Okaji, 2009).
          A salt mine is a mining operation involved in the extraction of rock salt or halite from evaporite deposits
(Weller and Dumitroaia, 2005). Prior to the advent of the internal combustion engine and earth moving equipment,
mining salt was one of the most expensive and dangerous of operations. While salt is now plentiful, before the
Industrial Revolution salt was difficult to come by, and salt mining was often done by slave or prison labour
(Taylor et al., 2011).
          Biodiversity is an attribute of an area and specifically refers to the varieties within and among living
organisms, assemblage of the living organisms, biotic communities and biotic processes, whether naturally
occurring or modified by humans (DeLong, 1996). Extreme environments such as acidic, thermophilic,
hypersaline, and arid regions, are important ‘hot spots’ of microbial ‘megadiversity’. These are habitats of
microorganisms which have the genetic and physiological capacity to survive and grow under these harsh or
extreme conditions through which they have evolved while shaping the environment as we know it today (Olsen et
al., 1994 and Woese, 1987).
          Many types of bacterial species have been isolated from various salt environments. Including the
Gram-negative halophilic like species of the genera Vibrio, Alteromonas, Acinetobacter, Marinomonas and
Pseudomonas (Prado et al., 1991). Similarly species of the genera Marinococcus, Sporosarcina, Salinococcus and
Bacillus have been recovered from saline soils and salterns (Farrow et al., 1992). Previously, a limited study of

                                                         95
Journal of Natural Sciences Research                                                                                                                                    www.iiste.org
          ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
          Vol.2, No.7, 2012

          water samples collected from Khewra salt mine has indicated the presence of bacteria belonging to Halomonas
          magadiensis and Virgibacillus halodenitrificans (Ghauri et al., 2006).
                    Antibiotic resistance is a concern for the management of diseases in humans, animals and plants (Nwosu,
          2001).
                    The present study is the first report of its kind that deals with culturable microbial biodiversity of salt
          mine site in Ebonyi State and their susceptibility pattern to antimicrobial agents.
          MATERIALS and Methods
          Study Location
                    This study was conducted within the Uburu salt mining site, in Okposi Local Government Area of Ebonyi
          state. The study area is located between Latitude 050 55΄N and 060 00΄N, and longitude 070 30΄E and 070 35΄E,
          rainfall pattern is bimodal (April-July), September-November with a short spell sometimes in August. The annual
          rainfall is between 1000mm-1500mm.The vegetation of the area is predominantly derived Savannah. The mean
          annual temperature is about 24oC and the relative humidity is between 60-80% (Ofomata, 1975; Ezeh and
          Chukwu, 2011).
          Collection of Soil Sample
                    The soil samples were randomly collected from various locations in Uburu salt mining site, in Okposi
          Local Government Area of Ebonyi state. This was done by using sterile hand trowel to dig about 10cm by 10cm
          depth of the soil. The soil samples were randomly collected in groups A, B and C within the Uburu salt mining site.
          Group A was collected from Uburu salt lake, Group B around lakeshore, while group C was collected 250 km
          away from Uburu salt mining site. The soil samples were transported in sterile beaker to the laboratory within 1
          hour of collection.

          Microbiological Analysis of the Soil Sample
               The microbiological analysis of the soil samples were carried out (Oyeleke and Manga, 2008a). The
          microorganisms were identified and characterized using standard biochemical tests (Cheesbrough, 2006).
          Antimicrobial Susceptibility Testing
                   The antibiotic sensitivity test of the bacterial isolates was performed by disc diffusion technique using
          commercially available discs on nutrient agar plates (Iroha et al., 2009).
                   The susceptibility of the fungal isolates on the commonly used antifungal drugs was determined using
          agar well diffusion method according to Ochie and Kokhalker (2008). The zones of inhibition were determined by
          measuring the diameter in millimeter of zone to which the antifungal drugs inhibited the growth of the organisms.

          RESULT
          The various results for the various tests done are shown below.

          Table 1: Characteristics of the bacteria isolates

Morphological                                                                                                                              Sugar                          Suspected Organisms
characterization                                                                                                                           Fermentation Test
                                                                                                         Voges Proskauer
                                           Gram staining


                                                           Catalase Test

                                                                           Oxidase Test




                                                                                                                           Motility Test
                                                                                          Indole Test




                                                                                                                                                               Fructose
                                                                                                                                           Glucose


                                                                                                                                                     Lactose




Colour            Consistency/Tex
                  ture
Grayish           Small        round      +                -               +              -              -                 -               +         -         -          Bacillus species
                  colony
Light yellow      Slightly raised         -                +               +              -              -                 -               +         -         -          Pseudomonas species
Dirty white       Raised       rough      -                +               -              +              -                 +               +         -         +          Erwinia species
                  surface



Creamy            Raised/                 +                +               -              -              -                 -               +         -         -          Staphylococcus species
                  smooth edge
Creamy            Flat surface            -                +               -              -              +                 -               +         +         +          Klebsiella species
Creamy            Raised/                 +                +               -              -              -                 -               +         -         -          Staphylococcus species
                  smooth edge


                                                                                                        96
Journal of Natural Sciences Research                                                                   www.iiste.org
       ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
       Vol.2, No.7, 2012

                 The bacterial isolates were then characterized as shown in Table 1 above. Six bacteria (Bacillus species,

            Pseudomonas species, Erwinia species, Staphylococcus species, Klebsiella species and Staphylococcus

            species) were isolated in this study and suspected to be found in the salt mining site.


       Table 2: Morphological and microscopic feature of fungi isolates


Morphological Characteristics                          Microscopic Examination                               Suspected
                                                                                                             Organisms
White filamentous growth that turns to                 Long septate hyphae with swollen conidiophore         Aspergillus species
black sporulation                                      bearing phialide at its apex

Long hyphael growth that sporulates to                 Long non-septate hyphae with mycelium bearing         Rhizopus species
black within 48 hours                                  terminal sporongiosphores on columella

White wooly growth that turns darker as it             Non-septate hyphae with straight sporangiophore       Mucor species
sporulates                                             spherical spores
Pink, fluffy and spreading colonies with               Septate hyphae with sickle chlamydospores at the      Fusarium species
creamy surface around its edges                        hyphae
Powdery yellow raised rough surface                    Septate and branch condioshore with brush like        Penicillium species
colonies                                               conidial head


                 The fungal isolates were then characterized as shown in Table 2 above. Five fungi (Aspergillus species,

            Rhizopus species, Mucor species, Fusarium species and Penicillium species) were isolated in this study and

            suspected to be found in the salt mining site.



       Table 3: Distribution and percentage frequency of bacterial isolates from group A and B

    Bacterial Isolates                       (100 Sample) Group A       (100 Sample) Group     Total
                                             (%)                        B (%)

    Pseudomonas species                      2 (14.3%)                  5 (13.5%)              7 (13.7%)
    Bacillus species                         5 (35.7%)                  14 (37.8%)             19 (37.3%)
    Erwinia species                          1 (7.1%)                   4 (10.8%)              5 (9.8%)
    Klebsiella species                       2 (14.3%)                  6 (16.3%)              8 (15.7%)
    Staphylococcus species                   4 (28.6%)                  8 (21.6%)              12 (23.5%)
    Total                                    14                         37                     51


       Table 4: Distribution and percentage frequency of bacterial isolates from group C

    Bacterial Isolates                       (100 Sample) Group
                                             C (%)

    Pseudomonas species                      15 (16.7%)
    Bacillus species                         25 (27.8%)
    Erwinia species                          9 (10.0%)
    Klebsiella species                       13 (14.4%)
    Staphylococcus species                   28 (31.1%)
    Total                                    90

       Table 5: Distribution and percentage frequency of fungal isolates from group A and B

                                                                   97
Journal of Natural Sciences Research                                                                     www.iiste.org
   ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
   Vol.2, No.7, 2012

Fungal Isolates                          (100 Sample) Group A          (100 Sample) Group   Total
                                         (%)                           B (%)

Aspergillus species                      8 (42.1%)                     5 (16.1%)            13 (26.0%)
Rhizopus species                         9 (47.4%)                     12 (38.7%)           21 (42.0%)
Mucor species                            -                             2 (6.5%)             2 (4.0%)
Fusarium species                         -                             4 (12.9%)            4 (8.0%)
Penicillum species                       2 (10.5%)                     8 (25.8%)            10 (20.0%)
Total                                    19                            31                   50


   Table 6: Distribution and percentage frequency of fungal isolates from group C

Fungal Isolates                          (100 Sample) Group
                                         C (%)

Aspergillus species                      11 (19.3%)
Rhizopus species                         16 (28.1%)
Mucor species                            7 (12.3%)
Fusarium species                         9 (15.7%)
Penicillium species                      14 (24.6%)
Total                                    57

         Out of 300 samples analyzed from the salt mining site, a total of 14, 37 and 90 bacteria isolates were obtained
        from sample group A, B and C respectively as shown in Table 3 and 4, while 19, 31 and 57 fungal isolates
        were from sample group A, B and C respectively as shown in Table 5 and 6. Out of which 14.3%, 35.7%,
        7.1%, 14.3% and 28.6% were Bacillus species, Erwinia species, Klebsiella species and Staphylococcus
        species respectively from sample group A; 13.5%, 37.8%, 10.8, 16.3 and 21.6% were Bacillus species,
        Erwinia species, Klebsiella species and Staphylococcus species respectively from sample group B; and
        16.7%, 27.8%, 10.0%, 14.4% and 31.1% were Bacillus species, Erwinia species, Klebsiella species and
        Staphylococcus species respectively from sample group C. 42.1% and 47.4% were Aspergillus species and
        Rhizopus species respectively from sample group A; 16.1%,              38.7%, 6.5%, 12.9% and 25.8% were
        Aspergillus species, Rhizopus species, Mucor species, Fusarium species and Penicillium species respectively
        from sample group B; and 19.3%, 28.1%, 12.3%, 15.7% and 24.6% were Aspergillus species, Rhizopus
        species, Mucor species, Fusarium species and Penicillium species respectively from sample group C.

   Table 7: Antibiotic sensitivity of bacteria isolates
   Bacterial Isolate       CPX          CEP          PN            SXT         AU      CN           OFX       PEF
   Bacillus species        25           -            -             -           15      -            11        17
   Pseudomonas             21           14           -             -           22      -            17        -
   species
   Erwinia species         -            -            19            -           -       -            -         14
   Klebsiella species      22           18           -             -           16      -            -         -
   Staphylococcus          10           18           -             -           13      -            -         -
   species


   Key: OFX = Ofloxacin, PEF = Pefloxacin, CEP = Ciprorex, AU = Augumentin, CN = Gentamycin, CPX =
   Ciproflox, SXT = Septrin, PN = Ampicillin, - = Nil

             The result of the susceptibility pattern of the commercially used antibiotic disc against the bacterial
   isolates is shown in Table 7 above. The antibacterial activity of the antibiotics used showed that ciproflox has the
   best inhibitory effect on all the organism tested with inhibition zone diameter (mm) of 25 mm, 21mm, 22 mm, 18
   mm and 10mm against Bacillus species, Pseudomonas species, Klebsiella species and Staphylococcus species
   respectively, but showed no inhibitory effect on Erwinia species. Subsequently, augmentin showed a reasonable
   inhibitory effect on Pseudomonas species, Klebsiella species, Bacillus species and Staphylococcus species with
   inhibition zone diameter of 22 mm, 16 mm, 15 mm and 13 mm respectively. Ciprorex showed inhibitory effect on
   Klebsiella species, Staphylococcus species and Pseudomonas species with inhibition zone diameter of 18 mm, 18
   mm and 14 mm respectively. Ampicillin and pefloxacin were able to show inhibitory effect on Klebsiella species,
   while septrin and gentamycin showed no inhibitory effect on all the test organisms.
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Journal of Natural Sciences Research                                                                       www.iiste.org
ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
Vol.2, No.7, 2012



Table 8: Antifungal susceptibility of the antifungal drugs
Fungal Isolates Metronidazole (mm) Ketoconazole (mm)                       Itraconazole (mm)           Fluconazole (mm)
                  2    4 6 8            1    2 4 6         8  1            2 4 6         8   1         2 4     6 8      1
Aspergillus       -    -    -     -     -    - - -         12 17           - - 6         10  13        - -     - -      -
species
Rhizopus          -    -    -     -     -    - - -         -  -            -    -   -     -      -     -    -     -    5   8
species
Mucor species     -    -    -     -     -    - - -         -  -            -    -   -     -      -     -    -     -    -   -
Fusarium          -    -    -     -     -    - 6 10 10 -                   -    -   -     -      -     -    -     -    -   -
species
Penicillium       -    -    -     5     8    - - -         -  -            -    4   7     12     -     -    -     -    -   -
species


Key: - = Nil
          The result of the susceptibility pattern of the antifungal drugs against the fungal isolates is shown in Table
8 above. Ketoconazole showed inhibitory effect on Aspergillus species and Fusarium species, and no inhibitory
effect on other test organisms. In the same vein, itraconazole showed inhibitory effect only Aspergillus species and
Penicillum species, with no inhibitory effect on other test organism. Metronidazole and fluconazole showed the
least inhibitory effect on the entire test organism.
DISCUSSION
          Microorganisms from samples collected from the various sites of salt mining sites were found highly
diverse group of halotolerant and halophilic microorganisms with different morphological characteristics (Table 1
and 2). However, the morphological characteristics alone were not enough to differentiate the bacterial and fungal
isolates and could lead to identification problems. The main reason for this is the standardization of a conventional
method, when it was applied to halophilic microorganisms because their growth characteristic highly dependent on
many factors such as temperature, pH, medium composition and NaCl concentrations. Our results of
morphological characteristics are in accordance with Fritze (2002) who recommended that morphological
characterization results cannot be directly compared without full background knowledge of the precise conditions
used for a particular test. Hence the microorganisms were subjected to various biochemical tests (Table 1 and 2).
Several studies have been conducted on the ecology, taxonomy, and phylogeny of halophilic bacteria as well as
their biochemical properties (Lichfield and Gillevet, 2002; Aneela et al., 2012).
          The results of this work showed that Bacillus species (37.3%) and Staphylococcus species (23.5%) were
more predominant bacteria from the salt mining site (sample group A and B), followed by Klebsiella species
(15.7%) and Pseudomonas species (13.7%), while Erwinia species recorded the least frequency of 9.8%. These
results are in agreement with those reported by Quesada et al. (1982), and Rodriguez-Valera (1988), who reported
higher frequencies of moderately halotolerant and halophilic bacteria compared to extremely halophilic bacteria in
saline environments. Subsequently, Rhizopus species (42.0%) and Aspergillus species (26.0%) were more
predominant fungi from the salt mining site (sample group A and B), followed by Penicillium species (20.0%) and
Fusarium species (8.0%), while Mucor species recorded the least frequency of 4.0%. This result is also in line with
the work of Shweta et al. (2012), who reported the presence of salt tolerance of halophilic fungi from mangroves
and solar salterns. And also the work of Mbata (2008) who isolated fungi from hyper saline Dead Sea water.
          The frequency occurrence of the bacterial isolates in this work has shown that out of the five bacterial
isolates, Bacillus species (37.3%) has the highest frequency in salt mining site (sample group A and B), followed
by Staphylococcus species (23.5%) and Klebsiella species (15.7%), while Pseudomonas species and Erwinia
species had the least frequency of 13.7% and 9.8% respectively. This is in agreement with the work of Nasrin et al.
(2012), who reported the Bacillus genus are more prevalent in salt containing environments compared to other
microbial groups that may be found under such environments. However bacterial diversity was more evident on
the basis of presence/absence of endospores in case of our isolates related to Bacillus species. Results of this study
are also in accordance with those of Rohban et al. (2009), who isolated bacterial strains belonging to the genera
Bacillus species from Saltan lake of Iran. In the same vein Lucretia et al. (2009), also revealed the presence of
Bacillus species at the highest frequency when compared to other microbial population isolated from Sua pan solar
salterns, South Africa. However, the high frequency of Staphylococcus species (23.5%) isolated in this work is
also similar to the work of Nasrin et al. (2012), who showed that Staphylococcus species can also be isolated from
salt mining site at high frequency. Aneela et al. (2012) reported the presence Staphylococcus species (4.8%) at a
very low frequency from salt mines of Karak, Pakistan, which is contrary to the finding of this work, but also an
indication that Staphylococcus species can be isolated from salt mining site. Pseudomonas species in this work
was isolated in low proportion, this is in accordance with the work of Aneela et al. (2012), who reported the
presence Pseudomonas species (4.8%) at a very low frequency from salt mines. Similarly, Dombrowski (1963)
                                                          99
Journal of Natural Sciences Research                                                                       www.iiste.org
ISSN 2224-3186 (Paper)      ISSN 2225-0921 (Online)
Vol.2, No.7, 2012

reported the Pseudomonas species in Paleozoic salt deposits. Abdulla (2009) reported the presence of Erwinia
species, which were highly resistance to heavy metals (Cu, Cd, Hg, Mn, Ni and Zn). Erwinia species in this work
was isolated in the lowest percentage frequency of 9.8%. Hence this is an indication that Erwinia species have high
tolerance to metals hence can be isolated from halophilic environment which are known to contain some of this
heavy metals at a reasonable proportion.
          The frequency occurrence of the fungal isolates has showed that out of the five fungal isolates, Rhizopus
species (42.0%) has the highest frequency from the salt mining site (sample group A and B), followed by
Aspergillus species (26.0%), Penicillium species (20.0%) and Fusarium species (8.0%), while Mucor species had
the least frequency of 4.0% (Table 5). Rhizopus species has the highest frequency from the salt mining site. This
in line with the work of Altaf and Mairza (2003), who isolated Rhizopus species at a very high proportion from
Khewra salt mine in Pakistan. This is an indication that Rhizopus species can be isolated from salt mining sites.
The reasonably high percentage frequency of Aspergillus species in this work is in accordance with the work of
Mbata (2008), who isolated Aspergillus versicolor at a very high frequency 44.1% from hypersaline Dead Sea
water. Penicillium species and Fusarium species were also isolated from the salt mining site. This is similar with
the work of Asya et al. (2009), who reported the presence of Penicillium species, Fusarium species and Mucor
species, and other fungi from Dead Sea in Syria-Africa.
          The sample group C, which is obtained outside the salt mining site showed more bacterial and fungal
isolates when compared to the salt mining site (group A and B). However, microbial population increases as one
moves away from the salt mining site and observation that conforms to the work of Dobler et al. (2001), who
reported that substrate metabolism (utilization) by microbes’ increases with distance away from the point of heavy
pollution. The type of microorganism present in terrestrial environment is often dependent on the nature of nutrient
available and the competency of the microbial population to withstand the pressure (stress imposed on them by the
pollutants) (Barkay and Pritchard, 1988). Their detection stems from their ability to survive and function under
stress (Kivisaar, 2003).
          Antibiotic resistance is a concern for the management of diseases in humans, animals and plants. The
intense research efforts to elucidate mechanism of resistance have focused on genes derived from a narrow range
of environments. Most of the known resistance determinants have been discovered in clinical and vertinary
bacterial isolates, whereas the environmental reservoirs of antibiotic resistance are not well characterized (Nwosu,
2001 and Seveno et al., 2002).
          Antibiotics used in this study included ofloxacin, pefloxacin, ciprorex, augumentin, gentamycin,
ciproflox, septrin and penicillin. Bacillus species was fully susceptible ciproflox, pefloxacin, augumentin and
resistant to ofloxacin, ciprorex, gentamycin, septrin and ampicillin (Table 7). This result in line with the work of
Belma et al. (2002), who isolated Bacillus species from soil sample and reported their resistance to ampicillin,
gentamycin and ciproflox. In the same vain Ikpeme et al. (2011) reported the resistance of Bacillus species to
gentamicin, penicillin and other commonly used antibiotics. Pseudomonas species were resistant to pefloxacin,
gentamycin, septrin and penicillin, and showed moderate resistance to ofloxacin and ciprorex. Klebsiella species
were resistant to ofloxacin, pefloxacin, gentamycin, septrin and ampicillin this work. Staphylococcus species were
resistant to almost all the antibiotics tested. Erwinia species showed resistance to all the antibiotics tested in this
work. The fact that several bacterial species are known to be resistant to a wide array of antibiotics was confirmed
by Aseffa et al. (1997).
          The result of this work showed that Rhizopus species and Mucor species were resistant to all the
antifungal drugs tested. Ketoconazole showed inhibitory effect on Aspergillus species and Fusarium species, and
no inhibitory effect on other test organisms. In the same vein, itraconazole showed inhibitory effect only
Aspergillus species and Penicillium species, with no inhibitory effect on other test organism. Metronidazole and
fluconazole showed the least inhibitory effect on the entire test organisms. This might be attributed to
inappropriate prescription of these antifungal drugs by healthcare providers or unnecessary use of antifungal
drugs by human.
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Journal of Natural Sciences Research                                                                  www.iiste.org
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                                                       102
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Microbiological examination and antimicrobial susceptibility of

  • 1. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 Microbiological Examination and Antimicrobial Susceptibility of Microorganisms Isolated From Salt Mining Site in Ebonyi State *Anyim C.1, Aneke C.J.2, Orji J.O. 1, Nworie O.1, and Egbule U.C.C. 1 1 Department of Applied Microbiology, Ebonyi State University, P.M.B. 053, Abakaliki, Nigeria. 2 Department of Biochemistry, Enugu State University of Science and Technology, P.M.B. 1660, Enugu, Nigeria. *Corresponding author Email: anyim5live@gmail.com. Tel.: +2347036347015 ABSTRACT The microbial examination and antimicrobial susceptibility profile of microorganism isolated from salt mining site in Ebonyi state was evaluated in the present study using standard microbiological technique. A total of 300 samples were randomly collected in three sample groups (A, B and C) of 100 each. Isolation, identification and characterization of organisms present on the soil samples were determined by culturing, Gram-staining and biochemical techniques. The result showed that the following organisms were isolated with their frequency as follow: Bacillus species (37.3%) and Staphylococcus species (23.5%) had the highest frequency in whole sample group A and B, while Klebsiella species (15.7%), Pseudomonas species (13.7%) and Erwinia species (9.8%), had the least. Rhizopus species (42.0%) and Aspergillus species (26.0%) where the highest fungi isolated, followed by Penicillum species (20.0%), while Mucor species (4.0%), and Fusarium species (8.0%) recorded the least. Sample group C showed high microbial population of all the microbial isolates when compared to sample group A and B. Disc diffusion method was used to determine the susceptibility of isolated bacteria to various antibiotics (ofloxacin, pefloxacin, ciprorex, augumentin, gentamycin, ciproflox, septrin, ampicillin), while agar well diffusion method was used to determine the susceptibility of isolated fungi to some antifungal drugs (metronidazole, ketoconazole, itraconazole, fluconazole). The antibacterial activity of the antibiotics used showed that ciproflox has the best inhibitory effect on all the bacteria isolates, followed by augmentin, while septrin and gentamycin showed no inhibitory effect on all the test bacteria. Ketoconazole showed the highest inhibitory effect on the fungal isolates, followed by itraconazole, while metronidazole and fluconazole showed the least inhibitory effect on the entire test fungal isolates. Hence multiple drug resistance of most isolates to appropriate drugs of choice are of great public health concern and calls for periodic monitoring of antibiograms to detect possible changing patterns. Microbes isolated in the salt mining site can also be used as a source of gene(s) that can increase salt tolerance in different crop species through genetic engineering. Keywords: Microorganisms, antibacterial, antifungal, resistance, salt mining site, Ebonyi State. INTRODUCTION Salt, also known as table salt, or rock salt, is a crystalline mineral that is composed primarily of sodium chloride (NaCl), a chemical compound belonging to the larger class of ionic salts. It is essential for animal life in small quantities, but is harmful to animals and plants in excess. Salt is one of the oldest, most ubiquitous food seasonings and salting is an important method of food preservation. The taste of salt (saltiness) is one of the basic human tastes (Caldwell et al., 2000). Salt is obtained from two sources: rock salt and brine. Rock salt is simply crystallized salt, also known as halite. It is the result of the evaporation of ancient oceans millions of years ago. Brine is water containing a high concentration of salt (McCarron et al., 2009). Large deposits of rock salt are found in Nigeria; rock salt is available in Benue State, while salt springs found at Awe (Plateau State), Uburu (Imo State) and in Okposi Okwu and Uburu (Ebonyi State) (Okaji, 2009 and ION, 2010). Ebonyi is the second largest small-scale salt producing areas in Nigeria. The small-scale salt production in Okposi and Uburu has continued for about 400 years ago (Okaji, 2009). A salt mine is a mining operation involved in the extraction of rock salt or halite from evaporite deposits (Weller and Dumitroaia, 2005). Prior to the advent of the internal combustion engine and earth moving equipment, mining salt was one of the most expensive and dangerous of operations. While salt is now plentiful, before the Industrial Revolution salt was difficult to come by, and salt mining was often done by slave or prison labour (Taylor et al., 2011). Biodiversity is an attribute of an area and specifically refers to the varieties within and among living organisms, assemblage of the living organisms, biotic communities and biotic processes, whether naturally occurring or modified by humans (DeLong, 1996). Extreme environments such as acidic, thermophilic, hypersaline, and arid regions, are important ‘hot spots’ of microbial ‘megadiversity’. These are habitats of microorganisms which have the genetic and physiological capacity to survive and grow under these harsh or extreme conditions through which they have evolved while shaping the environment as we know it today (Olsen et al., 1994 and Woese, 1987). Many types of bacterial species have been isolated from various salt environments. Including the Gram-negative halophilic like species of the genera Vibrio, Alteromonas, Acinetobacter, Marinomonas and Pseudomonas (Prado et al., 1991). Similarly species of the genera Marinococcus, Sporosarcina, Salinococcus and Bacillus have been recovered from saline soils and salterns (Farrow et al., 1992). Previously, a limited study of 95
  • 2. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 water samples collected from Khewra salt mine has indicated the presence of bacteria belonging to Halomonas magadiensis and Virgibacillus halodenitrificans (Ghauri et al., 2006). Antibiotic resistance is a concern for the management of diseases in humans, animals and plants (Nwosu, 2001). The present study is the first report of its kind that deals with culturable microbial biodiversity of salt mine site in Ebonyi State and their susceptibility pattern to antimicrobial agents. MATERIALS and Methods Study Location This study was conducted within the Uburu salt mining site, in Okposi Local Government Area of Ebonyi state. The study area is located between Latitude 050 55΄N and 060 00΄N, and longitude 070 30΄E and 070 35΄E, rainfall pattern is bimodal (April-July), September-November with a short spell sometimes in August. The annual rainfall is between 1000mm-1500mm.The vegetation of the area is predominantly derived Savannah. The mean annual temperature is about 24oC and the relative humidity is between 60-80% (Ofomata, 1975; Ezeh and Chukwu, 2011). Collection of Soil Sample The soil samples were randomly collected from various locations in Uburu salt mining site, in Okposi Local Government Area of Ebonyi state. This was done by using sterile hand trowel to dig about 10cm by 10cm depth of the soil. The soil samples were randomly collected in groups A, B and C within the Uburu salt mining site. Group A was collected from Uburu salt lake, Group B around lakeshore, while group C was collected 250 km away from Uburu salt mining site. The soil samples were transported in sterile beaker to the laboratory within 1 hour of collection. Microbiological Analysis of the Soil Sample The microbiological analysis of the soil samples were carried out (Oyeleke and Manga, 2008a). The microorganisms were identified and characterized using standard biochemical tests (Cheesbrough, 2006). Antimicrobial Susceptibility Testing The antibiotic sensitivity test of the bacterial isolates was performed by disc diffusion technique using commercially available discs on nutrient agar plates (Iroha et al., 2009). The susceptibility of the fungal isolates on the commonly used antifungal drugs was determined using agar well diffusion method according to Ochie and Kokhalker (2008). The zones of inhibition were determined by measuring the diameter in millimeter of zone to which the antifungal drugs inhibited the growth of the organisms. RESULT The various results for the various tests done are shown below. Table 1: Characteristics of the bacteria isolates Morphological Sugar Suspected Organisms characterization Fermentation Test Voges Proskauer Gram staining Catalase Test Oxidase Test Motility Test Indole Test Fructose Glucose Lactose Colour Consistency/Tex ture Grayish Small round + - + - - - + - - Bacillus species colony Light yellow Slightly raised - + + - - - + - - Pseudomonas species Dirty white Raised rough - + - + - + + - + Erwinia species surface Creamy Raised/ + + - - - - + - - Staphylococcus species smooth edge Creamy Flat surface - + - - + - + + + Klebsiella species Creamy Raised/ + + - - - - + - - Staphylococcus species smooth edge 96
  • 3. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 The bacterial isolates were then characterized as shown in Table 1 above. Six bacteria (Bacillus species, Pseudomonas species, Erwinia species, Staphylococcus species, Klebsiella species and Staphylococcus species) were isolated in this study and suspected to be found in the salt mining site. Table 2: Morphological and microscopic feature of fungi isolates Morphological Characteristics Microscopic Examination Suspected Organisms White filamentous growth that turns to Long septate hyphae with swollen conidiophore Aspergillus species black sporulation bearing phialide at its apex Long hyphael growth that sporulates to Long non-septate hyphae with mycelium bearing Rhizopus species black within 48 hours terminal sporongiosphores on columella White wooly growth that turns darker as it Non-septate hyphae with straight sporangiophore Mucor species sporulates spherical spores Pink, fluffy and spreading colonies with Septate hyphae with sickle chlamydospores at the Fusarium species creamy surface around its edges hyphae Powdery yellow raised rough surface Septate and branch condioshore with brush like Penicillium species colonies conidial head The fungal isolates were then characterized as shown in Table 2 above. Five fungi (Aspergillus species, Rhizopus species, Mucor species, Fusarium species and Penicillium species) were isolated in this study and suspected to be found in the salt mining site. Table 3: Distribution and percentage frequency of bacterial isolates from group A and B Bacterial Isolates (100 Sample) Group A (100 Sample) Group Total (%) B (%) Pseudomonas species 2 (14.3%) 5 (13.5%) 7 (13.7%) Bacillus species 5 (35.7%) 14 (37.8%) 19 (37.3%) Erwinia species 1 (7.1%) 4 (10.8%) 5 (9.8%) Klebsiella species 2 (14.3%) 6 (16.3%) 8 (15.7%) Staphylococcus species 4 (28.6%) 8 (21.6%) 12 (23.5%) Total 14 37 51 Table 4: Distribution and percentage frequency of bacterial isolates from group C Bacterial Isolates (100 Sample) Group C (%) Pseudomonas species 15 (16.7%) Bacillus species 25 (27.8%) Erwinia species 9 (10.0%) Klebsiella species 13 (14.4%) Staphylococcus species 28 (31.1%) Total 90 Table 5: Distribution and percentage frequency of fungal isolates from group A and B 97
  • 4. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 Fungal Isolates (100 Sample) Group A (100 Sample) Group Total (%) B (%) Aspergillus species 8 (42.1%) 5 (16.1%) 13 (26.0%) Rhizopus species 9 (47.4%) 12 (38.7%) 21 (42.0%) Mucor species - 2 (6.5%) 2 (4.0%) Fusarium species - 4 (12.9%) 4 (8.0%) Penicillum species 2 (10.5%) 8 (25.8%) 10 (20.0%) Total 19 31 50 Table 6: Distribution and percentage frequency of fungal isolates from group C Fungal Isolates (100 Sample) Group C (%) Aspergillus species 11 (19.3%) Rhizopus species 16 (28.1%) Mucor species 7 (12.3%) Fusarium species 9 (15.7%) Penicillium species 14 (24.6%) Total 57 Out of 300 samples analyzed from the salt mining site, a total of 14, 37 and 90 bacteria isolates were obtained from sample group A, B and C respectively as shown in Table 3 and 4, while 19, 31 and 57 fungal isolates were from sample group A, B and C respectively as shown in Table 5 and 6. Out of which 14.3%, 35.7%, 7.1%, 14.3% and 28.6% were Bacillus species, Erwinia species, Klebsiella species and Staphylococcus species respectively from sample group A; 13.5%, 37.8%, 10.8, 16.3 and 21.6% were Bacillus species, Erwinia species, Klebsiella species and Staphylococcus species respectively from sample group B; and 16.7%, 27.8%, 10.0%, 14.4% and 31.1% were Bacillus species, Erwinia species, Klebsiella species and Staphylococcus species respectively from sample group C. 42.1% and 47.4% were Aspergillus species and Rhizopus species respectively from sample group A; 16.1%, 38.7%, 6.5%, 12.9% and 25.8% were Aspergillus species, Rhizopus species, Mucor species, Fusarium species and Penicillium species respectively from sample group B; and 19.3%, 28.1%, 12.3%, 15.7% and 24.6% were Aspergillus species, Rhizopus species, Mucor species, Fusarium species and Penicillium species respectively from sample group C. Table 7: Antibiotic sensitivity of bacteria isolates Bacterial Isolate CPX CEP PN SXT AU CN OFX PEF Bacillus species 25 - - - 15 - 11 17 Pseudomonas 21 14 - - 22 - 17 - species Erwinia species - - 19 - - - - 14 Klebsiella species 22 18 - - 16 - - - Staphylococcus 10 18 - - 13 - - - species Key: OFX = Ofloxacin, PEF = Pefloxacin, CEP = Ciprorex, AU = Augumentin, CN = Gentamycin, CPX = Ciproflox, SXT = Septrin, PN = Ampicillin, - = Nil The result of the susceptibility pattern of the commercially used antibiotic disc against the bacterial isolates is shown in Table 7 above. The antibacterial activity of the antibiotics used showed that ciproflox has the best inhibitory effect on all the organism tested with inhibition zone diameter (mm) of 25 mm, 21mm, 22 mm, 18 mm and 10mm against Bacillus species, Pseudomonas species, Klebsiella species and Staphylococcus species respectively, but showed no inhibitory effect on Erwinia species. Subsequently, augmentin showed a reasonable inhibitory effect on Pseudomonas species, Klebsiella species, Bacillus species and Staphylococcus species with inhibition zone diameter of 22 mm, 16 mm, 15 mm and 13 mm respectively. Ciprorex showed inhibitory effect on Klebsiella species, Staphylococcus species and Pseudomonas species with inhibition zone diameter of 18 mm, 18 mm and 14 mm respectively. Ampicillin and pefloxacin were able to show inhibitory effect on Klebsiella species, while septrin and gentamycin showed no inhibitory effect on all the test organisms. 98
  • 5. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 Table 8: Antifungal susceptibility of the antifungal drugs Fungal Isolates Metronidazole (mm) Ketoconazole (mm) Itraconazole (mm) Fluconazole (mm) 2 4 6 8 1 2 4 6 8 1 2 4 6 8 1 2 4 6 8 1 Aspergillus - - - - - - - - 12 17 - - 6 10 13 - - - - - species Rhizopus - - - - - - - - - - - - - - - - - - 5 8 species Mucor species - - - - - - - - - - - - - - - - - - - - Fusarium - - - - - - 6 10 10 - - - - - - - - - - - species Penicillium - - - 5 8 - - - - - - 4 7 12 - - - - - - species Key: - = Nil The result of the susceptibility pattern of the antifungal drugs against the fungal isolates is shown in Table 8 above. Ketoconazole showed inhibitory effect on Aspergillus species and Fusarium species, and no inhibitory effect on other test organisms. In the same vein, itraconazole showed inhibitory effect only Aspergillus species and Penicillum species, with no inhibitory effect on other test organism. Metronidazole and fluconazole showed the least inhibitory effect on the entire test organism. DISCUSSION Microorganisms from samples collected from the various sites of salt mining sites were found highly diverse group of halotolerant and halophilic microorganisms with different morphological characteristics (Table 1 and 2). However, the morphological characteristics alone were not enough to differentiate the bacterial and fungal isolates and could lead to identification problems. The main reason for this is the standardization of a conventional method, when it was applied to halophilic microorganisms because their growth characteristic highly dependent on many factors such as temperature, pH, medium composition and NaCl concentrations. Our results of morphological characteristics are in accordance with Fritze (2002) who recommended that morphological characterization results cannot be directly compared without full background knowledge of the precise conditions used for a particular test. Hence the microorganisms were subjected to various biochemical tests (Table 1 and 2). Several studies have been conducted on the ecology, taxonomy, and phylogeny of halophilic bacteria as well as their biochemical properties (Lichfield and Gillevet, 2002; Aneela et al., 2012). The results of this work showed that Bacillus species (37.3%) and Staphylococcus species (23.5%) were more predominant bacteria from the salt mining site (sample group A and B), followed by Klebsiella species (15.7%) and Pseudomonas species (13.7%), while Erwinia species recorded the least frequency of 9.8%. These results are in agreement with those reported by Quesada et al. (1982), and Rodriguez-Valera (1988), who reported higher frequencies of moderately halotolerant and halophilic bacteria compared to extremely halophilic bacteria in saline environments. Subsequently, Rhizopus species (42.0%) and Aspergillus species (26.0%) were more predominant fungi from the salt mining site (sample group A and B), followed by Penicillium species (20.0%) and Fusarium species (8.0%), while Mucor species recorded the least frequency of 4.0%. This result is also in line with the work of Shweta et al. (2012), who reported the presence of salt tolerance of halophilic fungi from mangroves and solar salterns. And also the work of Mbata (2008) who isolated fungi from hyper saline Dead Sea water. The frequency occurrence of the bacterial isolates in this work has shown that out of the five bacterial isolates, Bacillus species (37.3%) has the highest frequency in salt mining site (sample group A and B), followed by Staphylococcus species (23.5%) and Klebsiella species (15.7%), while Pseudomonas species and Erwinia species had the least frequency of 13.7% and 9.8% respectively. This is in agreement with the work of Nasrin et al. (2012), who reported the Bacillus genus are more prevalent in salt containing environments compared to other microbial groups that may be found under such environments. However bacterial diversity was more evident on the basis of presence/absence of endospores in case of our isolates related to Bacillus species. Results of this study are also in accordance with those of Rohban et al. (2009), who isolated bacterial strains belonging to the genera Bacillus species from Saltan lake of Iran. In the same vein Lucretia et al. (2009), also revealed the presence of Bacillus species at the highest frequency when compared to other microbial population isolated from Sua pan solar salterns, South Africa. However, the high frequency of Staphylococcus species (23.5%) isolated in this work is also similar to the work of Nasrin et al. (2012), who showed that Staphylococcus species can also be isolated from salt mining site at high frequency. Aneela et al. (2012) reported the presence Staphylococcus species (4.8%) at a very low frequency from salt mines of Karak, Pakistan, which is contrary to the finding of this work, but also an indication that Staphylococcus species can be isolated from salt mining site. Pseudomonas species in this work was isolated in low proportion, this is in accordance with the work of Aneela et al. (2012), who reported the presence Pseudomonas species (4.8%) at a very low frequency from salt mines. Similarly, Dombrowski (1963) 99
  • 6. Journal of Natural Sciences Research www.iiste.org ISSN 2224-3186 (Paper) ISSN 2225-0921 (Online) Vol.2, No.7, 2012 reported the Pseudomonas species in Paleozoic salt deposits. Abdulla (2009) reported the presence of Erwinia species, which were highly resistance to heavy metals (Cu, Cd, Hg, Mn, Ni and Zn). Erwinia species in this work was isolated in the lowest percentage frequency of 9.8%. Hence this is an indication that Erwinia species have high tolerance to metals hence can be isolated from halophilic environment which are known to contain some of this heavy metals at a reasonable proportion. The frequency occurrence of the fungal isolates has showed that out of the five fungal isolates, Rhizopus species (42.0%) has the highest frequency from the salt mining site (sample group A and B), followed by Aspergillus species (26.0%), Penicillium species (20.0%) and Fusarium species (8.0%), while Mucor species had the least frequency of 4.0% (Table 5). Rhizopus species has the highest frequency from the salt mining site. This in line with the work of Altaf and Mairza (2003), who isolated Rhizopus species at a very high proportion from Khewra salt mine in Pakistan. This is an indication that Rhizopus species can be isolated from salt mining sites. The reasonably high percentage frequency of Aspergillus species in this work is in accordance with the work of Mbata (2008), who isolated Aspergillus versicolor at a very high frequency 44.1% from hypersaline Dead Sea water. Penicillium species and Fusarium species were also isolated from the salt mining site. This is similar with the work of Asya et al. (2009), who reported the presence of Penicillium species, Fusarium species and Mucor species, and other fungi from Dead Sea in Syria-Africa. The sample group C, which is obtained outside the salt mining site showed more bacterial and fungal isolates when compared to the salt mining site (group A and B). However, microbial population increases as one moves away from the salt mining site and observation that conforms to the work of Dobler et al. (2001), who reported that substrate metabolism (utilization) by microbes’ increases with distance away from the point of heavy pollution. The type of microorganism present in terrestrial environment is often dependent on the nature of nutrient available and the competency of the microbial population to withstand the pressure (stress imposed on them by the pollutants) (Barkay and Pritchard, 1988). Their detection stems from their ability to survive and function under stress (Kivisaar, 2003). Antibiotic resistance is a concern for the management of diseases in humans, animals and plants. The intense research efforts to elucidate mechanism of resistance have focused on genes derived from a narrow range of environments. Most of the known resistance determinants have been discovered in clinical and vertinary bacterial isolates, whereas the environmental reservoirs of antibiotic resistance are not well characterized (Nwosu, 2001 and Seveno et al., 2002). Antibiotics used in this study included ofloxacin, pefloxacin, ciprorex, augumentin, gentamycin, ciproflox, septrin and penicillin. Bacillus species was fully susceptible ciproflox, pefloxacin, augumentin and resistant to ofloxacin, ciprorex, gentamycin, septrin and ampicillin (Table 7). This result in line with the work of Belma et al. (2002), who isolated Bacillus species from soil sample and reported their resistance to ampicillin, gentamycin and ciproflox. In the same vain Ikpeme et al. (2011) reported the resistance of Bacillus species to gentamicin, penicillin and other commonly used antibiotics. Pseudomonas species were resistant to pefloxacin, gentamycin, septrin and penicillin, and showed moderate resistance to ofloxacin and ciprorex. Klebsiella species were resistant to ofloxacin, pefloxacin, gentamycin, septrin and ampicillin this work. Staphylococcus species were resistant to almost all the antibiotics tested. Erwinia species showed resistance to all the antibiotics tested in this work. The fact that several bacterial species are known to be resistant to a wide array of antibiotics was confirmed by Aseffa et al. (1997). The result of this work showed that Rhizopus species and Mucor species were resistant to all the antifungal drugs tested. Ketoconazole showed inhibitory effect on Aspergillus species and Fusarium species, and no inhibitory effect on other test organisms. In the same vein, itraconazole showed inhibitory effect only Aspergillus species and Penicillium species, with no inhibitory effect on other test organism. Metronidazole and fluconazole showed the least inhibitory effect on the entire test organisms. This might be attributed to inappropriate prescription of these antifungal drugs by healthcare providers or unnecessary use of antifungal drugs by human. REFERENCES Abdulla, D.A. (2009). Plasmids profiles, antibiotic and heavy metal resistance incidence of endophytic bacteria isolated from grapevine (Vitis vinifera L.). African Journal of Biotechnology. 8 (21), 5873-5882. Altaf, H. and Mirza, S.B. (2003). Comparative Study of the Effect of Na+, K+ and Ca++ Metals and Rhizopus species on the Growth of Acacia nilotica and Peganum harmala Seeds, Khewra Salt Mine, District Jhelum and Muzaffarabad, Azad Kashmir, Pakistan. Pakistan Journal of Biological Sciences. 6(15), 1324-1327. Aneela, R., Iftikhar, A., Muhammad, I. and Muhammad, J. (2012). preliminary isolation and characterization of halotolerant and halophilic bacteria from salt mines of Karak, Pakistan. Pak. J. Bot. 44, 365-370. Aseffa, A., Gedhi, E. and Asmelash. J. (1997). 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