Pseudobutyrivibrio ruminis A12-1T

Introduction

Pseudobutyrivibrio ruminis A12-1^T

Pseudobutyrivibrio ruminis  A12-1^T (DSM 9787) was isolated from bovine rumen contents in Sweden [1]. It stains Gram negative and ferments a range of carbohydrates producing butyrate, formate and lactate. It is the type species of the genus Pseudobutyrivibrio within the family Lachnospiraceae and the type stain of the P. ruminis species [2]

The draft genome for A12-1 (3,020,378 bp) was generated through the Hungate1000 project with JGI [3].

As with Butyrivibrio species A12-1has two distinct respiratory enzyme complexes, Rnf and Ech, which couple with two ATP synthases in separate chemiosmotic circuits and impact energy conservation in these organisms [4].

LPSN: Pseudobutyrivibrio ruminis van Gylswyk et al. 1996

NCBI: Pseudobutyrivibrio ruminis.

GTBD: Pseudobutyrivibrio ruminis.

Risk group: 1

Global Methane Hub Metadata

Strain origin:	Sweden
Isolated from:	Cow rumen
Sequenced by:
Assembled by:	William G. Alexander
Genome and methylome analysis by:
MIC and culturing conditions by:
Transformed by:

Genome

P. ruminis A12-1T Genome Summary
Sequencing method	Oxford Nanopore
Contigs
Base pairs
CDSs
CRISPR
Genes
rRNA
tRNA
Miscellaneous RNA
Antimicrobial resistance genes

Methylome

Methylome analysis summary results

P. ruminis A12-1T Methylome Summary
Isolation Motif	% Motif Methylation

DefenseFinder Results

P. ruminis A12-1T 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 P. ruminis A12-1^T.

External Links

[1] van Gylswyk NO, Hippe H, Rainey FA. 1996. Pseudobutyrivibrio ruminis gen. nov., sp. nov., a butyrate-producing bacterium from the rumen that closely resembles Butyrivibrio fibrisolvens in phenotype. Int. J. Syst. Bacteriol 46: 559-563. doi: 10.1099/00207713-46-2-559

[2] https://bacdive.dsmz.de/strain/6362

[3] 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.

[4] Schoelmerich MC, Katsyv A, Dönig J, Hackmann TJ, Müller V. 2020. Energy conservation involving 2 respiratory circuits. Proc Natl Acad Sci U S A 117: 1167-1173. doi: 10.1073/pnas.1914939117.