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DnaSP specifications

Information


Unique identifier OMICS_01820
Name DnaSP
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publications for DnaSP

DnaSP citations

 (2606)
library_books

Systematic analysis of DEMETER like DNA glycosylase genes shows lineage specific Smi miR7972 involved in SmDML1 regulation in Salvia miltiorrhiza

2018
Sci Rep
PMCID: 5940787
PMID: 29739980
DOI: 10.1038/s41598-018-25315-w

[…] rom 16 plant species were downloaded from Phytozome (http://phytozome.jgi.doe.gov/pz/portal.html) (Table ). Ka and Ks values were calculated for two gene pairs, SmDML2/SmDML3 and SmDML5/SmDML6, using DNASP5 software. […]

library_books

Effects of habitat suitability for vectors, environmental factors and host characteristics on the spatial distribution of the diversity and prevalence of haemosporidians in waterbirds from three Brazilian wetlands

2018
PMCID: 5930942
PMID: 29716645
DOI: 10.1186/s13071-018-2847-z

[…] y described haplotypes with some close relationship to the waterbird haplotypes described in the present study.Haemosporidian diversity indices were determined for each waterbird population using the DnaSP program, version 5 []. Diversity indices (gene or haplotype diversity [] and nucleotide diversity []) were evaluated by their variances as well as using a statistical test comparing gene diversi […]

library_books

Multiplicity and molecular epidemiology of Plasmodium vivax and Plasmodium falciparum infections in East Africa

2018
Malar J
PMCID: 5932820
PMID: 29720181
DOI: 10.1186/s12936-018-2337-y

[…] ps://mafft.cbrc.jp/alignment/server/) was used to align DNA sequences []. Bioedit v7 was used to calculate sequences identity []. Analysis of haplotype and nucleotide diversity was performed by using DnaSP v5 []. The Nei’s unbiased expected heterozygosity (He) was calculated as a measure of overall genetic diversity for each genotype method []. Analysis of Molecular Variance (AMOVA) was conducted […]

library_books

Polymorphism in merozoite surface protein 7E of Plasmodium vivax in Thailand: Natural selection related to protein secondary structure

2018
PLoS One
PMCID: 5931635
PMID: 29718980
DOI: 10.1371/journal.pone.0196765

[…] n of anchorage or protein-protein interaction regions in disordered proteins was done by using the ANCHOR/IUPRED web server []. Haplotype diversity and its sampling variance were calculated using the DnaSP version 5.10 program []. Nucleotide diversity (π) was calculated from the mean of pairwise sequence differences in the sample sequences using Juke and Cantor model of nucleotide substitution []. […]

library_books

The Complete Plastome Sequences of Seven Species in Gentiana sect. Kudoa (Gentianaceae): Insights Into Plastid Gene Loss and Molecular Evolution

2018
Front Plant Sci
PMCID: 5938401
PMID: 29765380
DOI: 10.3389/fpls.2018.00493

[…] e comparisons were performed to identify the differences among the 11 taxa using mVISTA () and Geneious Basic 5.6.4 (). To identify divergence hotspots, nucleotide diversity (Pi) was determined using DnaSP V. 5.10 (). […]

library_books

Ginkgo biloba’s footprint of dynamic Pleistocene history dates back only 390,000 years ago

2018
BMC Genomics
PMCID: 5921299
PMID: 29703145
DOI: 10.1186/s12864-018-4673-2

[…] ted as FASTA with bcftools version 1.6 []. The resulting sequences where aligned using Clustal Omega [], the alignment was checked and trimmed in PhyDE version 0.9971 []. Calculations were done using DNASp version 6.10.03 [], VCFtools version 0.1.15 [] and Microsoft Excel 2016. […]

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DnaSP institution(s)
Departament de Genètica, Facultat de Biologia and Institut de Recerca de la Biodiversitat, Universitat de Barcelona, Barcelona, Spain

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