Burrows Wheeler Transform and Wavelet Tree Based Retrieval of Genome Sequence in an Indexed Genome Database

Author(s):  
Sanjeev Kumar ◽  
Suneeta Agarwal ◽  
Ranvijay
2018 ◽  
Vol 7 (21) ◽  
Author(s):  
Denis S. Grouzdev ◽  
Salimat K. Bidzhieva ◽  
Diyana S. Sokolova ◽  
Tatiyana P. Tourova ◽  
Ekaterina O. Patutina ◽  
...  

The draft genome sequence of an anaerobic fermenting bacterium, “Sphaerochaeta halotolerans” strain 4-11T, isolated from formation water of a low-temperature petroleum reservoir in Russia is presented. The genome is annotated to elucidate the taxonomic position of the strain 4-11T and to extend the public genome database.


2019 ◽  
Vol 8 (4) ◽  
Author(s):  
Denis S. Grouzdev ◽  
Ekaterina I. Burganskaya ◽  
Maria S. Krutkina ◽  
Marina V. Sukhacheva ◽  
Vladimir M. Gorlenko

The draft genome sequence of the green filamentous anoxygenic phototrophic (FAP) bacterium “Candidatus Viridilinea halotolerans” strain Chok-6, isolated from a cold saline sulfide-rich spring near Lake Chokrak, is presented. The genome sequence is annotated for elucidation of the taxonomic position of Chok-6 and to extend the public genome database.


2017 ◽  
Vol 92 (1) ◽  
pp. 22-33 ◽  
Author(s):  
X.L. Shi ◽  
Y.Q. Fu ◽  
A.Y. Abdullahi ◽  
M.W. Wang ◽  
F. Yang ◽  
...  

AbstractAncylostoma tubaeformemay infect canids, felids and humans, and pose a potential risk to public health. Polymerase chain reaction (PCR) techniques were used to amplify the complete mitochondrial (mt) genome sequence ofA. tubaeformefrom cats and to analyse its sequence characteristics after molecular identification based on the internal transcribed spacer ITS1+ sequence. The results show that the complete mt genome sequence (GenBank accession number KY070315) ofA. tubaeformefrom cats was 13,730 bp in length, including 12 protein-coding genes, 22 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes, two non-coding regions and an AT-rich region. The nucleotide content of A and T was 77.93%, biased toward A and T. Twelve protein-coding genes used ATT, TTG and GTG as initiation codons, and TAA, TAG, TA and T as termination codons. The length of the 22 tRNA genes ranged from 52 to 62 bp, their predicted secondary structures were D loops and V loops. The lengths of the two rRNAs were 958 and 697 bp. Phylogenetic analyses showed thatA. tubaeformefrom cats was in the lineage ofAncylostoma, having a close phylogenetic relationship withA. caninum. This study reports for the first time the mt genome ofA. tubaeformefrom cats in China, which could enhance the mt genome database of Ancylostomatidae nematodes, and it offers the scientific basis for further studies in the genetic diversity of hookworms among different hosts.


Plant Disease ◽  
2021 ◽  
Author(s):  
Zheng Zheng ◽  
Wenting Li ◽  
Zhenxi Li ◽  
Ling Zhang ◽  
Xiaoling Deng

Xanthomonas citri pv. citri (Xcc) is the causative agent of citrus canker, one of the most devastating disease threatening global citrus production. Here, we present the genome sequence of Xcc strain GD82 from a formalin-fixed citrus leaf specimen showing canker lesions collected at 1982 in Guangdong Province, China. The GD82 genome comprised of 5,197,217 bp with G+C content of 64.8 %, along with four circular plasmids, pXAC33 (32,377 bp), pXAC64 (63,972 bp), pXAC47 (47,810 bp) and pGD82.1 (219,560 bp). This is the oldest Xcc genome from historical citrus canker specimens in China, which will enrich the current Xcc genome database and facilitate genomic evolution research of Xcc.


2020 ◽  
Author(s):  
◽  
Evelina Siavrienė

A Molecular and Functional Evaluation of Coding and Non-Coding Genome Sequence Variants and Copy Number Variants


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