[PDF] Top 20 Non contiguous-finished genome sequence and description of Clostridium jeddahense sp. nov.

... duced Illumina reads for Clostridium jeddahense were filtered according to the read qualities. The mate pair library was constructed from 1 µg of genomic DNA using the Nextera Mate Pair Illumina guide. The ... See full document

... type strains within the quences were aligned using CLUSTALW, and phylogenetic inferences obtained using the maximum- likelihood method within the MEGA software. Numbers at the nodes are bootstrap values obtained by ... See full document

... complete genome se- quence and annotation. The 4,186,486 bp long genome (one chromosome but no plasmid) contains 3,847 protein-coding and 54 RNA genes, including 3 rRNA ... See full document

... Approximately 790,000 beads for a ¼ region and 340000 beads for a 1/8 region were loaded on the GS Titanium PicoTiterPlate PTP Kit 70×75 and se- quenced with the GS FLX Titanium Sequencing Kit XLR70 (Roche). The run was ... See full document

... formed against the non-redundant GenBank data- base using BLASTP. Functional categories of these proteins were searched against the Clusters of Orthologous Groups (COG) database using COGNITOR [31]. The prediction ... See full document

... nucleotide sequence similarity at the genome level between species, we compared the ORFs only using BLASTN and the following parameters: a query coverage of > 70% and a minimum nucleotide length of 100 ... See full document

... complete genome sequence and annotation. The 3,425,960 bp long genome (1 chromo- some but no plasmid) contains 3,064 protein-coding and 49 RNA ... See full document

... senegalensis and [5-11], thus suggesting that the human digestive flora is far from being fully known. The fecal specimen was preserved at -80°C after collection and sent to Marseille. Strain JC225 (Table 1) was isolated ... See full document

... arginine arylamidase, tyrosine arylamidase, histidine arylamidase and leucine arylamidase. Cells are susceptible to penicillin G, amoxicillin, ceftriaxone, cefalexin, imipenem, fosfomycin, erythromycin, doxycyclin, ... See full document

... DSM 26159, was grown aerobically on 5% sheep blood-enriched Columbia agar at 37°C. Four petri dishes were spread and resuspended in 3x500µl of TE buffer and stored at 80°C. Then, 500µl of this suspension were thawed, ... See full document

... sidered as new species if they exhibit <96.0% and <95.4% sequence identity with other validly pub- lished species for the 327- and 825-bp fragments of the gltA and rpoB genes, respectively [2,11-13]. This ... See full document

... 4,616,135 bp long (1 chromosome, but no plas- mid) with a 34.10% G + C content (Figure 6 and Table 4). Of the 4,519 predicted genes, 4,432 were protein-coding genes, and 87 were RNAs. Eight rRNA genes (one 16S rRNA, one ... See full document

... Colonies were smooth and transparent with 0.5 to 1 mm in diameter on blood-enriched Columbia agar. Optimal growth is only achieved anaerobi- cally and grows between 30 and 45°C, with opti- mal growth observed at 37°C. ... See full document

... The genome is 3,771,216 bp long with 64,30% G+C content (Table 4, Figure 6). It is composed of 73 contigs (54 contigs are >1,500 bp) arranged into 6 scaffolds. Of the 3,812 predicted genes, 3,761 were ... See full document

... complete genome sequence and its annotation. The 2,010,844 bp-long genome con- tains 1,909 protein-coding and 46 RNA genes, including two rRNA ... See full document

... Table 4). Of the 1,783 predicted genes, 1,738 were protein-coding genes, and 45 were RNAs. Three rRNA genes (one 16S rRNA, one 23S rRNA and one 5S rRNA) and 42 predicted tRNA genes were iden- tified in the genome. ... See full document

... This latter value was lower than the 98.7% 16S rRNA gene sequence threshold recommended by Stackebrandt and Ebers to delineate a new species without carrying out DNA-DNA hybridization [40]. Different growth ... See full document

... The current prokaryote species classification method, known as polyphasic taxonomy, is based on a combin- ation of genomic and phenotypic properties [4]. The usual parameters used to delineate a bacterial species include ... See full document

... specimen was preserved at −80 °C after collection and sent to Marseille. Strain JCE T (Table 1) was isolated in July 2013 by cultivation on blood culture bottle (Becton Dickinson, Temse, Belgique) supplemented with rumen ... See full document

... Microbacterium laevaniformans strain OR221 (AJGR00 000000), Microbacterium luticocti strain DSM 19459 (AULS00000000), Microbacterium paraoxydans strain 77MFTsu3.2 (AQYI00000000), Microbacterium testaceum strain StLB037 ... See full document