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Prokaryote microbial genomics

Section edited by Theo Smits

This section covers the structure and function of the genomes of prokaryotic and archaea microorganisms.

Page 1 of 28
  1. Content type: Research article

    In shotgun metagenomics, microbial communities are studied through direct sequencing of DNA without any prior cultivation. By comparing gene abundances estimated from the generated sequencing reads, functional...

    Authors: Mariana Buongermino Pereira, Mikael Wallroth, Viktor Jonsson and Erik Kristiansson

    Citation: BMC Genomics 2018 19:274

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  2. Content type: Research article

    Species of the genus Halomonas are salt-tolerant organisms that have a versatile metabolism and can degrade a variety of xenobiotic compounds, utilizing them as their sole carbon source. In this study, we examine...

    Authors: Ana Florencia Gasperotti, María Victoria Revuelta, Claudia Alicia Studdert and María Karina Herrera Seitz

    Citation: BMC Genomics 2018 19:266

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  3. Content type: Research article

    Many cyanobacteria are capable of fixing atmospheric nitrogen, playing a crucial role in biogeochemical cycling. Little is known about freshwater unicellular cyanobacteria Synechococcus spp. at the genomic level,...

    Authors: Andrea Di Cesare, Pedro J. Cabello-Yeves, Nathan A. M. Chrismas, Patricia Sánchez-Baracaldo, Michaela M. Salcher and Cristiana Callieri

    Citation: BMC Genomics 2018 19:259

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  4. Content type: Research article

    Coxiella burnetii is a Gram-negative gammaproteobacterium and zoonotic agent of Q fever. C. burnetii’s genome contains an abundance of pseudogenes and numerous selfish genetic elements. MITEs (miniature inverted-...

    Authors: Shaun Wachter, Rahul Raghavan, Jenny Wachter and Michael F. Minnick

    Citation: BMC Genomics 2018 19:247

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  5. Content type: Research article

    There is a worldwide interest for sustainable and environmentally-friendly ways to produce fuels and chemicals from renewable resources. Among them, the production of acetone, butanol and ethanol (ABE) or Isop...

    Authors: Hadrien Máté de Gérando, François Wasels, Angélique Bisson, Benjamin Clement, Frédérique Bidard, Etienne Jourdier, Ana María López-Contreras and Nicolas Lopes Ferreira

    Citation: BMC Genomics 2018 19:242

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  6. Content type: Research article

    Strains of Lactobacillus paracasei are present in many diverse environments, including dairy and plant materials and the intestinal tracts of humans and animals. Their adaptation to various niches is correlated t...

    Authors: Ewelina Stefanovic and Olivia McAuliffe

    Citation: BMC Genomics 2018 19:205

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  7. Content type: Research article

    Neisseria gonorrhoeae causes gonorrhoea, the second most commonly notified sexually transmitted infection in Australia. One of the highest notification rates of gonorrhoea is found in the remote regions of Wester...

    Authors: Barakat A. Al Suwayyid, Geoffrey W. Coombs, David J. Speers, Julie Pearson, Michael J. Wise and Charlene M. Kahler

    Citation: BMC Genomics 2018 19:165

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  8. Content type: Research article

    Our previous comparative genomic analysis of Staphylococcus equorum KS1039 with five S. equorum strains illuminated the genomic basis of its safety and salt tolerance. However, a comprehensive picture of the cell...

    Authors: Jong-Hoon Lee, Sojeong Heo and Do-Won Jeong

    Citation: BMC Genomics 2018 19:136

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  9. Content type: Research article

    Rhizobial symbionts belong to the classes Alphaproteobacteria and Betaproteobacteria (called “alpha” and “beta”-rhizobia). Most knowledge on the genetic basis of symbiosis is based on model strains belonging t...

    Authors: Agnieszka Klonowska, Rémy Melkonian, Lucie Miché, Pierre Tisseyre and Lionel Moulin

    Citation: BMC Genomics 2018 19:105

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  10. Content type: Research article

    The human pathogen Corynebacterium diphtheriae is the causative agent of diphtheria. In the 1990s a large diphtheria outbreak in Eastern Europe was caused by the strain C. diphtheriae NCTC 13129. Although the gen...

    Authors: Manuel Wittchen, Tobias Busche, Andrew H. Gaspar, Ju Huck Lee, Hung Ton-That, Jörn Kalinowski and Andreas Tauch

    Citation: BMC Genomics 2018 19:82

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  11. Content type: Research article

    Without knowledge of their genomic sequences, it is impossible to make functional models of the bacteria that make up human and animal microbiota. Unfortunately, the vast majority of publicly available genomes...

    Authors: Luis Acuña-Amador, Aline Primot, Edouard Cadieu, Alain Roulet and Frédérique Barloy-Hubler

    Citation: BMC Genomics 2018 19:54

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  12. Content type: Research article

    The protean chemical properties of mercury have long made it attractive for diverse applications, but its toxicity requires great care in its use, disposal, and recycling. Mercury occurs in multiple chemical f...

    Authors: Stephen P. LaVoie and Anne O. Summers

    Citation: BMC Genomics 2018 19:52

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    The Correction to this article has been published in BMC Genomics 2018 19:268

  13. Content type: Research article

    Among naturally occurring small molecules, tRNA-derived cyclodipeptides are a class that have attracted attention for their diverse and desirable biological activities. However, no tools are available to link ...

    Authors: Michael A. Skinnider, Chad W. Johnston, Nishanth J. Merwin, Chris A. Dejong and Nathan A. Magarvey

    Citation: BMC Genomics 2018 19:45

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  14. Content type: Software

    Expression screening of environmental DNA (eDNA) libraries is a popular approach for the identification and characterization of novel microbial enzymes with promising biotechnological properties. In such “func...

    Authors: Matteo Chiara, Antonio Placido, Ernesto Picardi, Luigi Ruggiero Ceci, David Stephen Horner and Graziano Pesole

    Citation: BMC Genomics 2018 19:44

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  15. Content type: Research article

    Bifidobacterium longum is a common member of the human gut microbiota and is frequently present at high numbers in the gut microbiota of humans throughout life, thus indicative of a close symbiotic host-microbe r...

    Authors: Silvia Arboleya, Francesca Bottacini, Mary O’Connell-Motherway, C. Anthony Ryan, R. Paul Ross, Douwe van Sinderen and Catherine Stanton

    Citation: BMC Genomics 2018 19:33

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  16. Content type: Research article

    The acetic acid bacterium Gluconobacter oxydans 621H is characterized by its exceptional ability to incompletely oxidize a great variety of carbohydrates in the periplasm. The metabolism of this α-proteobacterium...

    Authors: Angela Kranz, Tobias Busche, Alexander Vogel, Björn Usadel, Jörn Kalinowski, Michael Bott and Tino Polen

    Citation: BMC Genomics 2018 19:24

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  17. Content type: Research article

    Due to the predominant usage of short-read sequencing to date, most bacterial genome sequences reported in the last years remain at the draft level. This precludes certain types of analyses, such as the in-dep...

    Authors: Friedhelm Pfeiffer, Maria-Antonia Zamora-Lagos, Martin Blettinger, Assa Yeroslaviz, Andreas Dahl, Stephan Gruber and Bianca H. Habermann

    Citation: BMC Genomics 2018 19:20

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  18. Content type: Research article

    Xanthomonas citri, a causal agent of citrus canker, has been a well-studied model system due to recent availability of whole genome sequences of multiple strains from different geographical regions. Major limitat...

    Authors: Alberto M. Gochez, Jose C. Huguet-Tapia, Gerald V. Minsavage, Deepak Shantaraj, Neha Jalan, Annett Strauß, Thomas Lahaye, Nian Wang, Blanca I. Canteros, Jeffrey B. Jones and Neha Potnis

    Citation: BMC Genomics 2018 19:16

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  19. Content type: Research article

    In recent years, the idea of a highly immunogenic protein-based vaccine to combat Streptococcus pneumoniae and its severe invasive infectious diseases has gained considerable interest. However, the target protein...

    Authors: Gustavo Gámez, Andrés Castro, Alejandro Gómez-Mejia, Mauricio Gallego, Alejandro Bedoya, Mauricio Camargo and Sven Hammerschmidt

    Citation: BMC Genomics 2018 19:10

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  20. Content type: Research article

    Bovine tuberculosis (bTB) poses serious risks to animal welfare and economy, as well as to public health as a zoonosis. Its etiological agent, Mycobacterium bovis, belongs to the Mycobacterium tuberculosis comple...

    Authors: Moira Lasserre, Pablo Fresia, Gonzalo Greif, Gregorio Iraola, Miguel Castro-Ramos, Arturo Juambeltz, Álvaro Nuñez, Hugo Naya, Carlos Robello and Luisa Berná

    Citation: BMC Genomics 2018 19:2

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Page 1 of 28

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