Genome sequence of the model sulfate reducer Desulfovibrio gigas: a comparative analysis within the Desulfovibrio genus

MicrobiologyOpen

Fabio O. Morais-Silva³  Antonio Mauro Rezende¹  Catarina Pimentel³  Catia I. Santos³  Carla Clemente²  Ana Varela&ndashRaposo³  Daniela M. Resende¹  Sofia M. da Silva³  Luciana Márcia de Oliveira¹  Marcia Matos²  Daniela A. Costa¹  Orfeu Flores²  Jerónimo C. Ruiz¹ 

[1] Grupo Informática de Biossistemas, Centro de Pesquisa René Rachou – FIOCRUZ, Belo Horizonte, Minas Gerais, Brazil;STAB VIDA - Madan Parque Rua dos Inventores s/sala 2.18, Caparica, Portugal;Instituto de Tecnologia Quómica e Biológica – Antonio Xavier, Universidade Nova de Lisboa (ITQB-UNL), Oeiras, Portugal

关键词: Analysis;    comparative genomics;    Desulfovibrio gigas;    genome;   

DOI  :  10.1002/mbo3.184

来源: Wiley

【 摘 要 】

Abstract

Desulfovibrio gigas is a model organism of sulfate-reducing bacteria of which energy metabolism and stress response have been extensively studied. The complete genomic context of this organism was however, not yet available. The sequencing of the D. gigas genome provides insights into the integrated network of energy conserving complexes and structures present in this bacterium. Comparison with genomes of other Desulfovibrio spp. reveals the presence of two different CRISPR/Cas systems in D. gigas. Phylogenetic analysis using conserved protein sequences (encoded by rpoB and gyrB) indicates two main groups of Desulfovibrio spp, being D. gigas more closely related to D. vulgaris and D. desulfuricans strains. Gene duplications were found such as those encoding fumarate reductase, formate dehydrogenase, and superoxide dismutase. Complexes not yet described within Desulfovibrio genus were identified: Mnh complex, a v-type ATP-synthase as well as genes encoding the MinCDE system that could be responsible for the larger size of D. gigas when compared to other members of the genus. A low number of hydrogenases and the absence of the codh/acs and pfl genes, both present in D. vulgaris strains, indicate that intermediate cycling mechanisms may contribute substantially less to the energy gain in D. gigas compared to other Desulfovibrio spp. This might be compensated by the presence of other unique genomic arrangements of complexes such as the Rnf and the Hdr/Flox, or by the presence of NAD(P)H related complexes, like the Nuo, NfnAB or Mnh.

【 授权许可】

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© 2014 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.

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