More Related Content Similar to tai lieu1 (20) More from Hiệp Lê Bá (14) 1. Digital Object Identifiers as a technology Implementation of a full working prototype The NamesforLife model George M. Garrity Microbiology and Molecular Genetics Michigan State University 13. Technical infrastructure Adds dedicated and improved technical infrastructure Replication servers for RAs, secondary sites, mirror servers, proxy servers all housed in a secure commercial hosting facility More robust and scalable database DOI Directory Manager to provide technical oversight and evolutionary growth Provides a shared resolution service Global root servers, local Handle servers, clients, proxy servers Scalable and interoperable License provides a reference implementation but the database does not scale above a few million handles The Digital Object Identifier System 23. Name+ Taxon Literature Governing bodies Species+ Authority+ Strain+ Sequence+ GenBank DDBJ EMBL others Collections BRC 24. Name+ Species+ Literature Governing bodies GenBank DDBJ EMBL others Collections BRC Source+ Source+ Proposal STM Legal Databases Priority Validity Synonymy Exemplar req. direct indirect BRC Public Private General Authority+ Strain+ Feature+ Phenotypic FAME Biolog PA others Taxon 26. Name+ Species+ Old type, exemplar based on drawing or description Strain+ Feature+ Name+ Species+ A properly formed species Feature+ Name+ Species+ Candidatus or exemplar lost Feature+ Environmental sequence Strain+ Name+ Species+ Old type strain, not yet sequenced Feature+ “ Name”+ Misidentified taxon Strain* 27. Differing opinions… Name+ Taxon Strain+ Feature+ Species+ Name+ Name+ Strain+ Strain+ Feature+ Feature+ Taxon Taxon Homotypic synonymy Heterotypic synonymy 29. Alteromonas communis Alteromonas 107 ATCC 27126 DSM 6062 Y18228 Bauman et al. 1972 emend. Yi et al. 2004 Marinomonas communis Alteromonas communis Oceanospirillum commune Marinomonas Van Landschoot and De Ley 1984 Oceanospirillum Bowditch et al. 1984 Oceanospirillum commune Alteromonas communis Marinomonas communis 107 ATCC 27126 DSM 6062 Y18228 107 ATCC 27126 DSM 6062 Y18228 Basonym Synonym Paired 16S sequence, other data Type strain Species+ Species+ Species+ 30. Shewanella putrifaciens Alteromonas putrifaciens Shewanella Hammer 95 ATCC 8071 X82133 DSM 6067 ICPB 352 LMG 2268 NCIB 1047 OK-1 ACAM 541 ATCC 51192 AF005249 IAM 14159 U91546 ICP1 U85903 ACAM 591 U85903 DSM 12253 MacDonell and Colwell 1986 Shewanella algae Shewanella alga (corrig.) Shewanella Simidu et al., 1990 emend. Nozue et al. 1992 Shewanella Bowman et al. 1997 Shewanella frigidmarina OK-1 ACAM 541 ATCC 51192 AF005249 IAM 14159 U91546 ICP1 U85903 ACAM 591 U85903 DSM 12253 Z Species+ Species+ Species+ 31. Alteromonas citrea Alteromonas fulginea Alteromonas Gauthier et al. 1977 Pseudoalteromonas (Gauthier 1977) Gauthier et al. 1995 emend. Ivanova et al. 1998 Pseudoalteromonas citrea Alteromonas citrea Alteromonas Alteromonas fulginea Alteromonas citrea Romanenko et al. 1995 CIP 105339 AF529062 KMM 216 AF082563 ATCC 29719 DSM 6058 NCIMB 188 X82137 CIP 105339 AF529062 KMM 216 AF082563 ATCC 29719 DSM 6058 NCIMB 188 X82137 CIP 105339 AF529062 KMM 216 AF082563 Species+ Species+ Species+ 39. communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai Alteromonas 1972 1973 1976 1977 1978 1979 1981 macleodii (T) 40. communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae Alteromonas 1972 1973 1976 1977 1978 1979 1981 1982 macleodii (T) 42. communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai vaga benthica hanedai Marinomonas Alteromonas japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum Oceanosprillum maris williamsae 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 luteoviolaceae communis (T) linum (T) macleodii (T) putrifaciens (T) Shewanella 43. 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 communis vaga haloplanktis rubra citrea esperjiana undina aurantia hanedai luteoviolaceae denitrificans vaga benthica hanedai Marinomonas Alteromonas Shewanella japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum Oceanosprillum maris williamsae putrifaciens putrifaciens (T) communis (T) linum (T) macleodii (T) 44. communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans vaga benthica hanedai Marinomonas Alteromonas Shewanella japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum Oceanosprillum maris williamsae 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 colwelliana putrifaciens (T) communis (T) linum (T) macleodii (T) 45. vaga benthica hanedai Marinomonas Shewanella japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 colwelliana putrifaciens (T) communis (T) linum (T) macleodii (T) 48. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis putrifaciens hanedai denitrificans rubra citrea esperjiana undina aurantia luteoviolaceae tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fuliginea atlantica aurantia carrageenovora citrea esperjiana luteoviolacea rubra undina haloplanktis tetradonis putrifaciens (T) communis (T) linum (T) macleodii (T) nigrifaciens pisicida haloplanktis haloplanktis (T) Pseudoalteromonas 49. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 1997 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fulginea atlantica aurantia carrageenovora citrea esperjiana luteoviolacea nigrifaciens pisicida rubra Pseudoalteromonas undina antartica elyakoviii haloplanktis tetradonis haloplanktis haloplanktis (T) putrifaciens (T) communis (T) linum (T) macleodii (T) 50. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 1997 2000 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fulginea atlantica aurantia carrageenovora citrea esperjiana luteoviolacea nigrifaciens pisicida rubra Pseudoalteromonas undina antartica elyakoviii fridgidimarina geldimarina baltica bacteriolytica prydzensis tunicata distincta elyakovii peptidolytica haloplanktis tetradonis mediterannea haloplanktis haloplanktis (T) putrifaciens (T) communis (T) linum (T) macleodii (T) woodyii amazonensis oneidensis pealeana violacea 51. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 1997 2000 2001 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fulginea atlantica aurantia carrageenovora citrea esperjiana luteoviolacea nigrifaciens pisicida rubra Pseudoalteromonas undina antartica elyakoviii fridgidimarina geldimarina woodyii amazonensis baltica oneidensis pealeana violacea bacteriolytica prydzensis tunicata distincta elyakovii peptidolytica tetrodonis japonica haloplanktis tetradonis mediterannea haloplanktis haloplanktis (T) putrifaciens (T) communis (T) linum (T) macleodii (T) 52. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 1997 2000 2001 2002 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fuliginea Pseudoalteromonas elyakoviii fridgidimarina geldimarina woodyii amazonensis baltica oneidensis pealeana violacea japonica denitrificans livingstonensis alleyanna atlantica aurantia carrageenovora citrea esperjiana luteoviolacea nigrifaciens pisicida rubra undina antartica bacteriolytica prydzensis tunicata distincta elyakovii peptidolytica tetrodonis haloplanktis tetradonis mediterannea haloplanktis haloplanktis (T) putrifaciens (T) communis (T) linum (T) macleodii (T) 53. vaga benthica hanedai colwelliana algae Marinomonas Shewanella communis vaga haloplanktis rubra citrea esperjiana undina aurantia putrifaciens hanedai luteoviolaceae denitrificans tetradonis atlantica carageenovora Alteromonas colwelliana 1972 1973 1976 1977 1978 1979 1981 1982 1984 1986 1987 1988 1990 1992 1995 1997 2000 2001 2002 2004 japonicum minutium biejerinckii maris maris hiroshimense multiglobiferum pelagicum pusillum commune jannaschii kreigii vagum biejerinckii pelagicum maris hiroshimense Oceanosprillum maris williamsae distincta fulginea Pseudoalteromonas elyakoviii fridgidimarina geldimarina woodyii amazonensis baltica oneidensis pealeana violacea japonica denitrificans livingstonensis alleyanna atlantica aurantia carrageenovora citrea esperjiana luteoviolacea nigrifaciens pisicida rubra undina antartica bacteriolytica prydzensis tunicata distincta elyakovii peptidolytica tetrodonis haloplanktis tetradonis 12 others mariniintestina saire schlegeliana gaetbuli mediterannea primoryensis haloplanktis haloplanktis (T) putrifaciens (T) communis (T) linum (T) macleodii (T) stellipolaris litorea 5 others 54. Alteromonas Alteromonadacea Alteromonadales Gammaproteobacteria Alishewanella Aestuariibacter Ferrimonas Colwellia Idiomarina Glaciecola Marinobacterium Marinobacter Pseudoalteromonas Microbulbifer Incertae sedis Psychromonas Teredinibacter Shewanella Thalassomonas Ferrimonadacea Idiomarinacea Moritella Moritellaceae Pseudoalteromonadaceae Ferrimonas Idiomarina Pseudoalteromonas Psychromonadacea Algicola Psychromonas Moritella Shewanellaceae Shewanella Incertae sedis Teredinibacter Agarvorans Alishewanella Marinobacterium Marinobacter Microbulbifer Salinomonas Colwelliaceae Colwelliaceae Thalassomonas May 2004 November 2004 1 Family 16 genera -> 8 families 12 genera 1 unclassified -> 7 unclassfied Which is correct? Which is supported by the data?
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