scholarly journals Identification and Phylogenetic Studies of a New Probiotic Lactobacillus spp. Egyptian Isolate Based on 16s rRNA Gene

2020 ◽  
Vol 4 (3) ◽  
pp. 01-07
Author(s):  
Ahmed R Awd ◽  
Khater A Khater ◽  
Ahmed I Ismail
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Rrna Gene ◽  
Phylogenetic Studies ◽  
Probiotic Lactobacillus ◽  
Egyptian Isolate ◽  
Lactobacillus Spp

scholarly journals Sediminibacter furfurosus gen. nov., sp. nov. and Gilvibacter sediminis gen. nov., sp. nov., novel members of the family Flavobacteriaceae

2007 ◽  
Vol 57 (2) ◽  
pp. 265-269 ◽  
Author(s):  
Shams Tabrez Khan ◽  
Yasuyoshi Nakagawa ◽  
Shigeaki Harayama
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Rrna Gene ◽  
Okinawa Island ◽  
Phenotypic Differences ◽  
Phylogenetic Studies ◽  
The Family ◽  
The City ◽  
Type Strains

Two Gram-negative, chemoheterotrophic, non-motile strains, Mok-1-36T and MAOS-86T, were isolated from marine-sediment samples collected from the coasts of Okinawa island and the city of Odawara in Japan, respectively. Phylogenetic studies based on 16S rRNA gene sequences indicated that Mok-1-36T and MAOS-86T were members of the family Flavobacteriaceae, clustering with members of the genera Ulvibacter and Vitellibacter, respectively. Strains Mok-1-36T and MAOS-86T shared pairwise 16S rRNA gene sequence similarities of 93.5 and 89.1 % with the type strains of Ulvibacter litoralis and Vitellibacter vladivostokensis, respectively. Phylogenetic distinctiveness and phenotypic differences from their phylogenetic neighbours indicated that these strains represent two novel species and genera within the family Flavobacteriaceae, for which the names Sediminibacter furfurosus gen. nov., sp. nov. (MAOS-86T) and Gilvibacter sediminis gen. nov., sp. nov. (Mok-1-36T) are proposed. The type strain of Sediminibacter furfurosus is MAOS-86T (=NBRC 101622T=CIP 109285T) and the type strain of Gilvibacter sediminis is Mok-1-36T (=NBRC 101626T=CIP 109286T).

Phylogenetic studies of the rRNA group II pseudomonads based on 16S rRNA gene sequences

1993 ◽  
Vol 74 (3) ◽  
pp. 324-329 ◽  
Author(s):  
Xiang Li ◽  
M. Dorsch ◽  
T Del Dot ◽  
L.I. Sly ◽  
E. Stackebrandt ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Phylogenetic Studies ◽  
Group Ii

scholarly journals Anaerotruncus colihominis gen. nov., sp. nov., from human faeces

2004 ◽  
Vol 54 (2) ◽  
pp. 413-417 ◽  
Author(s):  
Paul A. Lawson ◽  
Yuli Song ◽  
Chengxu Liu ◽  
Denise R. Molitoris ◽  
Marja-Liisa Vaisanen ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Human Faeces ◽  
Phylogenetic Studies ◽  
End Products ◽  
Rrna Gene Sequencing

Phenotypic and phylogenetic studies were performed on two isolates of an unidentified Gram-positive, anaerobic, non-spore-forming, rod-shaped bacterium that was isolated from human faeces. The organisms were catalase-negative, produced acetic and butyric acids as end products of metabolism and possessed a DNA G+C content of approximately 54 mol%. Comparative 16S rRNA gene sequencing demonstrated that the two isolates were related closely to each other and formed a hitherto unknown sublineage within the Clostridium leptum rRNA cluster of organisms. Based on phylogenetic and phenotypic evidence, it is proposed that the unknown bacterium should be classified in a novel genus as Anaerotruncus colihominis gen. nov., sp. nov. The type strain of Anaerotruncus colihominis is WAL 14565T=CCUG 45055T=CIP 107754T.

Chryseobacterium rigui sp. nov., isolated from an estuarine wetland

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1062-1067 ◽  
Author(s):  
Sung-Joon Park ◽  
Jung-Hye Choi ◽  
Chang-Jun Cha
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Estuarine Wetland ◽  
Link Type ◽  
Phylogenetic Studies ◽  
Genomic Relatedness

A bacterium, designated strain CJ16T, was isolated from the estuarine wetland of the Han River. Cells of the isolate were yellow-pigmented, Gram-stain-negative, non-motile and rod-shaped. Growth of strain CJ16T was observed in TSB at 5–37 °C (optimum 30 °C), at pH 5.0–9.0 (optimum pH 6.0) and with 0–3 % (w/v) NaCl (optimum 0 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CJ16T was most closely related to Chryseobacterium hagamense KCTC 22545T (97.2 % 16S rRNA gene sequence similarity). Genomic relatedness based on DNA–DNA hybridization between strain CJ16T and C. hagamense KCTC 22545T was 23 % (strain CJ16T as probe) and 19 % (strain KCTC 22545T as probe). Chemotaxonomic analysis revealed that strain CJ16T possessed MK-6 as the major isoprenoid quinone and sym-homospermidine as the predominant polyamine. The predominant fatty acids were iso-C15 : 0 (26.9 %), iso-C17 : 0 3-OH (16.8 %) and summed feature 9 (comprising C16 : 0 10-methyl and/or iso-C17 : 1ω9c; 10.5 %). The DNA G+C content of strain CJ16T was 37.9 mol%. Based on phenotypic, genotypic and phylogenetic studies, strain CJ16T represents a novel species of the genus Chryseobacterium , for which the name Chryseobacterium rigui sp. nov. is proposed. The type strain is CJ16T ( = KACC 16560T  = JCM 18078T).

scholarly journals Bacteroides faecis sp. nov., isolated from human faeces

2010 ◽  
Vol 60 (11) ◽  
pp. 2572-2576 ◽  
Author(s):  
Min-Soo Kim ◽  
Seong Woon Roh ◽  
Jin-Woo Bae
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Human Faeces ◽  
Phylogenetic Studies ◽  
Low Levels ◽  
Type Strains

Two anaerobic, Gram-negative, non-motile and non-spore-forming bacterial strains, designated MAJ27T and MAJ26, were isolated from human faeces. Both isolates grew optimally at 37 °C, were oxidase- and catalase-negative, were sensitive to bile and produced acid from fermentation of several substrates, including glucose. A study based on 16S rRNA gene sequences showed that both isolates were closely related to type strains of species of the genus Bacteroides. Comparisons of the isolates with Bacteroides thetaiotaomicron VPI 5482T and Bacteroides finegoldii JCM 13345T showed high levels of 16S rRNA gene sequence similarity (98.6–98.7 and 96.9–97.0 %, respectively), but low levels of DNA–DNA relatedness (≤22 %). The DNA G+C content (42.7±1 mol%) and the major fatty acid (anteiso-C15 : 0, 39.3–42.5 %) supported the assignment of the isolates to the genus Bacteroides. Based on phenotypic, chemotaxonomic, genotypic and phylogenetic studies, we propose that strains MAJ27T and MAJ26 be classified as representing a novel species, Bacteroides faecis sp. nov. The type strain is MAJ27T (=KCTC 5823T=JCM 16478T).

Differentiation Of Clarias Batrachus, C. Gariepinus And Heteropneustes Fossilis By Pcr-Sequencing Of Mitochondrial 16s Rrna Gene

2015 ◽  
Vol 41 (1) ◽  
pp. 51-58
Author(s):  
Mohammad Shamimul Alam ◽  
Hawa Jahan ◽  
Rowshan Ara Begum ◽  
Reza M Shahjahan
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Fish Larva ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Rrna Gene ◽  
Valuable Insight ◽  
Multiple Sequence ◽  
Pcr Rflp ◽  
Alternative Means

Heteropneustesfossilis, Clariasbatrachus and C. gariepinus are three major catfishes ofecological and economic importance. Identification of these fish species becomes aproblem when the usual external morphological features of the fish are lost or removed,such as in canned fish. Also, newly hatched fish larva is often difficult to identify. PCRsequencingprovides accurate alternative means of identification of individuals at specieslevel. So, 16S rRNA genes of three locally collected catfishes were sequenced after PCRamplification and compared with the same gene sequences available from othergeographical regions. Multiple sequence alignment of the 16S rRNA gene fragments ofthe catfish species has revealed polymorphic sites which can be used to differentiate thesethree species from one another and will provide valuable insight in choosing appropriaterestriction enzymes for PCR-RFLP based identification in future. Asiat. Soc. Bangladesh, Sci. 41(1): 51-58, June 2015

Marine mammals are natural hosts of Oceanivirga salmonicida, a bacterial pathogen of Atlantic salmon

2020 ◽  
Vol 139 ◽  
pp. 161-174
Author(s):  
R Palmer ◽  
GTA Fleming ◽  
S Glaeser ◽  
T Semmler ◽  
A Flamm ◽  
...  
Keyword(s):  
16S Rrna ◽  
Atlantic Salmon ◽  
16S Rrna Gene ◽  
Marine Mammals ◽  
Rrna Gene ◽  
Bacterial Disease ◽  
Common Dolphin ◽  
Stenella Coeruleoalba ◽  
Striped Dolphin ◽  
Natural Hosts

During 1992 and 1993, a bacterial disease occurred in a seawater Atlantic salmon Salmo salar farm, causing serious mortalities. The causative agent was subsequently named as Oceanivirga salmonicida, a member of the Leptotrichiaceae. Searches of 16S rRNA gene sequence databases have shown sequence similarities between O. salmonicida and uncultured bacterial clones from the digestive tracts of marine mammals. In the current study, oral samples were taken from stranded dolphins (common dolphin Delphinus delphis, striped dolphin Stenella coeruleoalba) and healthy harbour seals Phoca vitulina. A bacterium with growth characteristics consistent with O. salmonicida was isolated from a common dolphin. The isolate was confirmed as O. salmonicida, by comparisons to the type strain, using 16S rRNA gene, gyrB, groEL, and recA sequence analyses, average nucleotide identity analysis, and MALDI-TOF mass spectrometry. Metagenomic analysis indicated that the genus Oceanivirga represented a significant component of the oral bacterial microbiomes of the dolphins and seals. However, sequences consistent with O. salmonicida were only found in the dolphin samples. Analyses of marine mammal microbiome studies in the NCBI databases showed sequences consistent with O. salmonicida from the common dolphin, striped dolphin, bottlenose dolphin Tursiops truncatus, humpback whale Megaptera novaeangliae, and harbour seal. Sequences from marine environmental studies in the NCBI databases showed no sequences consistent with O. salmonicida. The findings suggest that several species of marine mammals are natural hosts of O. salmonicida.

Monoglobus pectinilyticus gen. nov., sp. nov., a pectinolytic bacterium isolated from human faeces.

2020 ◽  
Author(s):  
CC Kim ◽  
WJ Kelly ◽  
ML Patchett ◽  
GW Tannock ◽  
Z Jordens ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Middle Lamella ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Citrus Peel ◽  
Human Faeces ◽  
The Family

© 2017 IUMS. A novel anaerobic pectinolytic bacterium (strain 14T) was isolated from human faeces. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 14T belonged to the family Ruminococcaceae, but was located separately from known clostridial clusters within the taxon. The closest cultured relative of strain 14T was Acetivibrio cellulolyticus (89.7% sequence similarity). Strain 14T shared ~99% sequence similarity with cloned 16S rRNA gene sequences from uncultured bacteria derived from the human gut. Cells were Gram-stain-positive, non-motile cocci approximately 0.6μm in diameter. Strain 14T fermented pectins from citrus peel, apple, and kiwifruit as well as carbohydrates that are constituents of pectins and hemicellulose, such as galacturonic acid, xylose, and arabinose. TEM images of strain 14T, cultured in association with plant tissues, suggested extracellular fibrolytic activity associated with the bacterial cells, forming zones of degradation in the pectin-rich regions of middle lamella. Phylogenetic and phenotypic analysis supported the differentiation of strain 14T as a novel genus in the family Ruminococcaceae. The name Monoglobus pectinilyticus gen. nov., sp. nov. is proposed; the type strain is 14T (JCM 31914T=DSM 104782T).

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