Ruminococcus albus AD2013: Difference between revisions
Created page with "== Introduction == === Strain characteristics and function in the rumen === === Strain history and information === == Global Methane Hub Metadata == {| class="wikitable" | valign="top" |Strain origin: | valign="top" |New Zealand |- | valign="top" |Isolated from: | valign="top" |Cow rumen |- | valign="top" |Sequenced by: | valign="top" | |- | valign="top" |Assembled by: | valign="top" |William G. Alexander |- | valign="top" |Genome and methylome analysis by: | valign="..." |
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=== Strain history and information === | === Strain history and information === | ||
'''''Ruminococcus albus'' AD2013''' | |||
''Ruminococcus albus'' AD2013 (DSM 115563) was isolated from the plant-adherent fraction of bovine rumen contents in NZ [1, cow D]. AD2013 has not been phenotypically characterized but its genome encodes a broad range of carbohydrate active enzymes, as well as proteins containing dockerin and carbohydrate-binding domains. AD2013 is predicted to be cellulolytic, and to have similar metabolism to ''Ruminococcus albus'' 7. | |||
The draft genome for AD2013 (4,234,989 bp) was generated through the Hungate1000 project with JGI [2]. | |||
NCBI: ''Ruminococcus albus''/''Hominimerdicola alba'' | |||
GTDB: ''Hominimerdicola alba_A''. AD2013 belongs to a different species group than the type strain of ''H. alba'' (7, DSM 20455) [3]. | |||
Risk group: 1. | |||
== Global Methane Hub Metadata == | == Global Methane Hub Metadata == | ||
| Line 113: | Line 124: | ||
== External Links == | == External Links == | ||
[1] Noel S. 2013. Cultivation and community composition analysis of plant-adherent rumen bacteria. PhD dissertation. Massey University, Palmerston North, New Zealand. <nowiki>https://mro.massey.ac.nz/server/api/core/bitstreams/bcfbe4cb-19a9-40c0-b5e8-61f9ddb90ce0/content</nowiki>. | |||
[2] Seshadri R, Leahy SC, Attwood GT, Teh KH, Lambie SC, Cookson AL, Eloe-Fadrosh EA, Pavlopoulos GA, Hadjithomas M, Varghese NJ, Paez-Espino D; Hungate1000 project collaborators; Perry R, Henderson G, Creevey CJ, Terrapon N, Lapebie P, Drula E, Lombard V, Rubin E, Kyrpides NC, Henrissat B, Woyke T, Ivanova NN, Kelly WJ. 2019. Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection. Nature Biotechnol 36: 359-367. doi: 10.1038/nbt.4110. | |||
[3] Hisatomi A, Ohkuma M, Sakamoto M. 2026. ''Hominimerdicola intestinalis'' sp. nov. and ''Ruminococcus sporogenes'' sp. nov., isolated from human faeces, and reclassification of ''Ruminococcus albus'' Hungate 1957 as ''Hominimerdicola alba'' comb. nov. Int J Syst Evol Microbiol 76: 7091. doi: 10.1099/ijsem.0.007091. | |||
Latest revision as of 21:22, 29 October 2026
Introduction
Strain characteristics and function in the rumen
Strain history and information
Ruminococcus albus AD2013
Ruminococcus albus AD2013 (DSM 115563) was isolated from the plant-adherent fraction of bovine rumen contents in NZ [1, cow D]. AD2013 has not been phenotypically characterized but its genome encodes a broad range of carbohydrate active enzymes, as well as proteins containing dockerin and carbohydrate-binding domains. AD2013 is predicted to be cellulolytic, and to have similar metabolism to Ruminococcus albus 7.
The draft genome for AD2013 (4,234,989 bp) was generated through the Hungate1000 project with JGI [2].
NCBI: Ruminococcus albus/Hominimerdicola alba
GTDB: Hominimerdicola alba_A. AD2013 belongs to a different species group than the type strain of H. alba (7, DSM 20455) [3].
Risk group: 1.
Global Methane Hub Metadata
| Strain origin: | New Zealand |
| Isolated from: | Cow rumen |
| Sequenced by: | |
| Assembled by: | William G. Alexander |
| Genome and methylome analysis by: | |
| MIC and culturing conditions by: | |
| Transformed by: |
Genome
| R. albus AD2013 Genome Summary | |
| Sequencing method | Oxford Nanopore |
| Contigs | |
| Base pairs | |
| CDSs | |
| CRISPR | |
| Genes | |
| rRNA | |
| tRNA | |
| Miscellaneous RNA | |
| Antimicrobial resistance genes | |
Methylome
Methylome analysis summary results
| R. albus AD2013 Methylome Summary | |
| Isolation Motif | % Motif Methylation |
DefenseFinder Results
| R. albus AD2013 DefenseFinder Results | |
| DefenseFinder System | # Found |
Methylating Escherichia coli strains
E. coli strain AGXXXXX engineered to carry methytransferases X, X, X for methylating plasmid DNA for R. albus AD2013.
Culturing Conditions
Antimicrobial Susceptibility
Transformation Results
External Links
[1] Noel S. 2013. Cultivation and community composition analysis of plant-adherent rumen bacteria. PhD dissertation. Massey University, Palmerston North, New Zealand. https://mro.massey.ac.nz/server/api/core/bitstreams/bcfbe4cb-19a9-40c0-b5e8-61f9ddb90ce0/content.
[2] Seshadri R, Leahy SC, Attwood GT, Teh KH, Lambie SC, Cookson AL, Eloe-Fadrosh EA, Pavlopoulos GA, Hadjithomas M, Varghese NJ, Paez-Espino D; Hungate1000 project collaborators; Perry R, Henderson G, Creevey CJ, Terrapon N, Lapebie P, Drula E, Lombard V, Rubin E, Kyrpides NC, Henrissat B, Woyke T, Ivanova NN, Kelly WJ. 2019. Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection. Nature Biotechnol 36: 359-367. doi: 10.1038/nbt.4110.
[3] Hisatomi A, Ohkuma M, Sakamoto M. 2026. Hominimerdicola intestinalis sp. nov. and Ruminococcus sporogenes sp. nov., isolated from human faeces, and reclassification of Ruminococcus albus Hungate 1957 as Hominimerdicola alba comb. nov. Int J Syst Evol Microbiol 76: 7091. doi: 10.1099/ijsem.0.007091.
