Abstract:
BACKGROUND:Rhodobacter sphaeroides 2.4.1 is a metabolically versatile organism that belongs to α-3 subdivision of Proteobacteria. The present study was to identify the extent, history, and role of gene duplications in R. sphaeroides 2.4.1, an organism that possesses two chromosomes. RESULTS:A protein similarity search (BLASTP) identified 1247 orfs (~29.4% of the total protein coding orfs) that are present in 2 or more copies, 37.5% (234 gene-pairs) of which exist in duplicate copies. The distribution of the duplicate gene-pairs in all Clusters of Orthologous Groups (COGs) differed significantly when compared to the COG distribution across the whole genome. Location plots revealed clusters of gene duplications that possessed the same COG classification. Phylogenetic analyses were performed to determine a tree topology predicting either a Type-A or Type-B phylogenetic relationship. A Type-A phylogenetic relationship shows that a copy of the protein-pair matches more with an ortholog from a species closely related to R. sphaeroides while a Type-B relationship predicts the highest match between both copies of the R. sphaeroides protein-pair. The results revealed that ~77% of the proteins exhibited a Type-A phylogenetic relationship demonstrating the ancient origin of these gene duplications. Additional analyses on three other strains of R. sphaeroides revealed varying levels of gene loss and retention in these strains. Also, analyses on common gene pairs among the four strains revealed that these genes experience similar functional constraints and undergo purifying selection. CONCLUSIONS:Although the results suggest that the level of gene duplication in organisms with complex genome structuring (more than one chromosome) seems to be not markedly different from that in organisms with only a single chromosome, these duplications may have aided in genome reorganization in this group of eubacteria prior to the formation of R. sphaeroides as gene duplications involved in specialized functions might have contributed to complex genomic development.
journal_name
BMC Microbioljournal_title
BMC microbiologyauthors
Bavishi A,Lin L,Schroeder K,Peters A,Cho H,Choudhary Mdoi
10.1186/1471-2180-10-331subject
Has Abstractpub_date
2010-12-30 00:00:00pages
331issn
1471-2180pii
1471-2180-10-331journal_volume
10pub_type
杂志文章相关文献
BMC MICROBIOLOGY文献大全abstract:BACKGROUND:Enteropathogenic Escherichia coli (EPEC) are classified into typical and atypical strains based on the presence of the E. coli adherence factor (EAF) plasmid. The EAF plasmid contains the bfp (bundle-forming pilus) operon and the perABC (plasmid encoded regulator) gene cluster. A 1-kb cryptic region of EAF p...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-015-0539-9
更新日期:2015-10-05 00:00:00
abstract:BACKGROUND:Exposure of cells to environmental stress conditions can lead to the interruption of several intracellular processes, in particular those performed by macromolecular complexes such as the spliceosome. RESULTS:During nucleotide sequencing of cDNA libraries constructed using RNA isolated from B. emersonii cel...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-9-231
更新日期:2009-10-29 00:00:00
abstract:BACKGROUND:Bacterial and cellular genotyping is becoming increasingly important in the diagnosis of infectious diseases. However, difficulties in obtaining sufficient amount of bacterial and cellular DNA extracted from the same human biopsy specimens is often a limiting factor. In this study, total DNA (host and bacter...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-175
更新日期:2008-10-08 00:00:00
abstract:BACKGROUND:The human gastrointestinal (GI) tract microbiota is characterised by an abundance of uncultured bacteria most often assigned in phyla Firmicutes and Bacteroidetes. Diversity of this microbiota, even though approached with culture independent techniques in several studies, still requires more elucidation. The...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-9-68
更新日期:2009-04-08 00:00:00
abstract:BACKGROUND:The type IV secretion system (T4SS) can be classified as a large family of macromolecule transporter systems, divided into three recognized sub-families, according to the well-known functions. The major sub-family is the conjugation system, which allows transfer of genetic material, such as a nucleoprotein, ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-172
更新日期:2012-08-09 00:00:00
abstract:BACKGROUND:Streptomyces lividans is an appealing host for the production of proteins of biotechnological interest due to its relaxed exogenous DNA restriction system and its ability to secrete proteins directly to the medium through the major Sec or the minor Tat routes. Often, protein secretion displays non-uniform ti...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-019-1591-7
更新日期:2019-10-26 00:00:00
abstract:BACKGROUND:Macrolide antibiotics are commonly administered for bacterial respiratory illnesses. Azithromycin (Az) is especially noted for extremely high intracellular concentrations achieved within macrophages which is far greater than the serum concentration. Clinical strains of Type B Francisella (F.) tularensis have...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-10-123
更新日期:2010-04-23 00:00:00
abstract:BACKGROUND:This study provides biochemical and molecular genetic characteristics of P. multocida isolated from dead saigas in 1988, 2010-2015 on the territory of the Republic of Kazakhstan. RESULTS:Bacteriological samples taken from carcasses of saiga antelope during mortality events recorded in West Kazakhstan in bot...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-019-1407-9
更新日期:2019-02-11 00:00:00
abstract:BACKGROUND:Avian pathogenic Escherichia coli (APEC) and uropathogenic E. coli (UPEC) are the two main subsets of extraintestinal pathogenic E. coli (ExPEC). Both types have multiple iron acquisition systems, including heme and siderophores. Although iron transport systems involved in the pathogenesis of APEC or UPEC ha...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-143
更新日期:2012-07-20 00:00:00
abstract:BACKGROUND:The genus Phytophthora includes a group of agriculturally important pathogens and they are commonly regarded as water molds. They produce motile zoospores that can move via water currents and on their own locomotion in aquatic environments. However, zoosporic response to dissolved oxygen, an important water ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-14-124
更新日期:2014-05-13 00:00:00
abstract:BACKGROUND:Staphylococcus aureus (S. aureus) is one of the primary causes of bone infections which are often chronic and difficult to eradicate. Bacteria like S. aureus may survive upon internalization in cells and may be responsible for chronic and recurrent infections. In this study, we compared the responses of a ph...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-014-0207-5
更新日期:2014-07-25 00:00:00
abstract:BACKGROUND:The compatible solute trehalose is involved in the osmostress response of Rhizobium etli, the microsymbiont of Phaseolus vulgaris. In this work, we reconstructed trehalose metabolism in R. etli, and investigated its role in cellular adaptation and survival to heat and desiccation stress under free living con...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-207
更新日期:2012-09-17 00:00:00
abstract:BACKGROUND:The use of chemical fungicides against fungal pathogens adversely affects soil and plant health thereby resulting in overall environmental hazards. Therefore, biological source for obtaining antifungal agents is considered as an environment-friendly alternative for controlling fungal pathogens. RESULTS:In t...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-019-1440-8
更新日期:2019-04-02 00:00:00
abstract:BACKGROUND:Enterobacter sakazakii is an emergent pathogen associated with ingestion of infant formula and accurate identification is important in both industrial and clinical settings. Bacterial species can be difficult to accurately characterise from complex biochemical datasets and computer algorithms can potentially...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-6-28
更新日期:2006-03-13 00:00:00
abstract:BACKGROUND:The heme acquisition machinery in Streptococcus pyogenes is believed to consist of the surface proteins, Shr and Shp, and heme-specific ATP-binding cassette transporter HtsABC. Shp has been shown to rapidly transfer its heme to the lipoprotein component, HtsA, of HtsABC. The function of Shr and the heme sour...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-15
更新日期:2008-01-23 00:00:00
abstract:BACKGROUND:Bovine tuberculosis (bTB) caused by Mycobacterium bovis is the most serious endemic disease affecting livestock in the UK. The European badger (Meles meles) is the most important wildlife reservoir of bTB transmission to cattle, making eradication particularly difficult. In this respect, oral vaccination wit...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-018-1210-z
更新日期:2018-07-13 00:00:00
abstract:BACKGROUND:Propionibacterium acnes is a commensal of human skin but is also known to be involved in certain diseases, such as acne vulgaris and infections of orthopaedic implants. Treatment of these conditions is complicated by increased resistance to antibiotics and/or biofilm formation of P. acnes bacteria. P. acnes ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-139
更新日期:2008-08-15 00:00:00
abstract:BACKGROUND:Ochrobactrum anthropi is a versatile bacterial species with strains living in very diverse habitats. It is increasingly recognized as opportunistic pathogen in hospitalized patients. The population biology of the species particularly with regard to the characteristics of the human isolates is being investiga...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-9-267
更新日期:2009-12-18 00:00:00
abstract:BACKGROUND:The genome of Arthrobacter sp. strain FB24 contains a chromate resistance determinant (CRD), consisting of a cluster of 8 genes located on a 10.6 kb fragment of a 96 kb plasmid. The CRD includes chrA, which encodes a putative chromate efflux protein, and three genes with amino acid similarities to the amino ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-9-199
更新日期:2009-09-16 00:00:00
abstract:BACKGROUND:Bacterial lipoproteins often play important roles in pathogenesis and can stimulate protective immune responses. Such lipoproteins are viable vaccine candidates. Haemophilus ducreyi, which causes the sexually transmitted disease chancroid, expresses a number of lipoproteins during human infection. One such l...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-14-166
更新日期:2014-06-24 00:00:00
abstract:BACKGROUND:Polymicrobial infections are responsible for significant mortality and morbidity in adults and children. Staphylococcus epidermidis and Candida albicans are the most frequent combination of organisms isolated from polymicrobial infections. Vascular indwelling catheters are sites for mixed species biofilm for...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-13-257
更新日期:2013-11-14 00:00:00
abstract:BACKGROUND:Bacillus spp. have prominent ability to suppress plant pathogens and corresponding diseases. Previous analyses of Bacillus spp. revealed numerous gene clusters involved in nonribosomal synthesis of cyclic lipopeptides with distinct antimicrobial action. The 4'-phosphopantetheinyl transferase (PPTase) encoded...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-017-1134-z
更新日期:2017-12-04 00:00:00
abstract:BACKGROUND:The Bacillus anthracis S-layer protein, BslA, plays a crucial role in mammalian infection. BslA is required to mediate adherence between host cells and vegetative forms of bacteria and this interaction promotes target organs adherence and blood-brain barrier (BBB) penetration in vivo. This study attempts to ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-016-0802-8
更新日期:2016-08-11 00:00:00
abstract:BACKGROUND:Bifidobacteria is one of the major gut commensal groups found in infants. Their colonization is commonly associated with beneficial effects to the host through mechanisms like niche occupation and nutrient competition against pathogenic bacteria. Iron is an essential element necessary for most microorganisms...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-014-0334-z
更新日期:2015-01-16 00:00:00
abstract:BACKGROUND:Pandemic Vibrio parahaemolyticus has undergone rapid changes in both K- and O-antigens, making detection of outbreaks more difficult. In order to understand these rapid changes, the genetic regions encoding these antigens must be examined. In Vibrio cholerae and Vibrio vulnificus, both O-antigen and capsular...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-10-274
更新日期:2010-11-02 00:00:00
abstract:BACKGROUND:Most of the studies evaluating the secular trends of blood isolates come from tertiary hospitals in urban areas. We sought to study the trends of the antimicrobial resistance of blood isolates in patients from a rural population hospitalized in a tertiary hospital in a small city in Greece. METHODS:We retro...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-6-41
更新日期:2006-05-02 00:00:00
abstract:BACKGROUND:Several conventional methods, including fungal culture and periodic acid-Schiff (PAS) reagent staining, have been used to diagnose oral candidiasis. The aim of this study was to evaluate the efficacy of a novel method, fungal fluorescent staining, in relation to conventional protocols in the diagnosis of ora...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-019-1467-x
更新日期:2019-05-14 00:00:00
abstract:BACKGROUND:Quorum sensing is a communication system that regulates gene expression in response to population density and often regulates virulence determinants. Deletion of the luxR homologue vjbR highly attenuates intracellular survival of Brucella melitensis and has been interpreted to be an indication of a role for ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-10-167
更新日期:2010-06-08 00:00:00
abstract:BACKGROUND:Antimicrobial resistance is currently a major global issue. As the rate of emergence of antimicrobial resistance has superseded the rate of discovery and introduction of new effective drugs, the medical arsenal now is experiencing shortage of effective drugs to combat diseases, particularly against diseases ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-017-0936-3
更新日期:2017-02-16 00:00:00
abstract:BACKGROUND:Meiotic cells undergo two rounds of nuclear division and generate gametes. Previous studies have indicated that a number of transcription factors modulate the transcriptome in successive waves during meiosis and spore formation in fission yeast. However, the mechanisms underlying the post-transcriptional reg...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-14-188
更新日期:2014-07-15 00:00:00