2017
DOI: 10.1093/nar/gkx1094
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GenBank

Abstract: GenBank® (www.ncbi.nlm.nih.gov/genbank/) is a comprehensive database that contains publicly available nucleotide sequences for 400 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole genome shotgun and environmental sampling projects. Most submissions are made using BankIt, the National Center for Biotechnology Information (NCBI) Submission Portal, or the tool tbl2asn.… Show more

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Cited by 661 publications
(488 citation statements)
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References 18 publications
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“…Phylogeny of RNA-dependent RNA polymerases. Protein sequences belonging to RNA viruses (excluding retroviruses) and to unclassified viruses were downloaded from the NCBI GenBank database in April 2017 (122). Initial screening for RdRp domains was performed using PSI-BLAST (123) (E value of 0.01, effective database size of 2 ϫ 10 8 sequences) with position-specific scoring matrices (PSSMs) produced from the available RdRp alignments.…”
Section: Methodsmentioning
confidence: 99%
“…Phylogeny of RNA-dependent RNA polymerases. Protein sequences belonging to RNA viruses (excluding retroviruses) and to unclassified viruses were downloaded from the NCBI GenBank database in April 2017 (122). Initial screening for RdRp domains was performed using PSI-BLAST (123) (E value of 0.01, effective database size of 2 ϫ 10 8 sequences) with position-specific scoring matrices (PSSMs) produced from the available RdRp alignments.…”
Section: Methodsmentioning
confidence: 99%
“…For this reason, field-identified species were confirmed by DNA barcoding using the cytochrome b or cytochrome oxidase subunit 1 mitochondrial genes [59]. Obtained sequences were compared against sequences in the GenBank and Barcode of Life databases [60,61]. When possible or necessary, sequences from both genes were used for species identification.…”
Section: Bats Age Sex and Species Identificationmentioning
confidence: 99%
“…The sequence of Leishmania donovani tyrosine aminotransferase (GenBank ID: 13386702) was obtained from the GenBank database [21] and aligned against tyrosine aminotransferase gene sequences of Rattus norvegicus, Mus musculus, Macaca mulatta, Homo sapiens, Bos taurus, Escherichia coli, Trypanosoma grayi, Trypanosoma cruzi, Leishmania panamensis, Leishmania braziliensis, Leishmania infantum, and Leishmania major by using CLUSTAL OMEGA [22]. A phylogenetic tree summarizing the genetic relatedness among these organisms was drawn using FIGTREE v1 tyrosine aminotransferase from Leishmania infantum, Leishmania donovani, Homo sapiens, Trypanosoma cruzi, and Rattus norvegicus was represented through ESPRIPT 3.0 [23].…”
Section: Sequence Analysismentioning
confidence: 99%