Analysis of distribution of genetic lineages of African rodents
– DNA barcoding using next-generation sequencing and museum
samples

k 2013

Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples

AGHOVÁ, Tatiana; Dagmar ČÍŽKOVÁ; Radim ŠUMBERA a Josef BRYJA

Základní údaje

Originální název

Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples

Autoři

AGHOVÁ, Tatiana; Dagmar ČÍŽKOVÁ; Radim ŠUMBERA a Josef BRYJA

Vydání

9th International Conference on Behaviour, Physiology and Genetics of Wildlife, 2013

Další údaje

Typ výsledku

Prezentace na konferencích

Utajení

není předmětem státního či obchodního tajemství

Označené pro přenos do RIV

Klíčová slova anglicky

DNA barcoding, next-generation sequencing, museum samples, rodents

Změněno: 12. 2. 2014 17:15, Mgr. Tatiana Aghová, Ph.D.

Anotace

V originále

DNA barcoding allowed the genetic identification of organisms based on short sequence of DNA. In last years this method has been boosted by continuing advances in sequencing technology. The so-called next-generation sequencing (NGS) delivers massive amount of DNA sequences at a reasonable cost and level of effort. In our study, we used 454 pyrosequencing to genotype ancient DNA (including type material) with the aim to analyse the distributional pattern of genetic lineages of rodents in Eastern Africa. Rodents are very suitable model organisms for phylogeographical study, but material from inaccessible areas is often limited only to old museum collections. The collections of African rodents from museums in Paris (MHNM) and Tervuren (RMCA) provided unique material from large geographical area, including localities that are not feasible to sample today. Even if the DNA was often degraded, minibarcoding based on 136 bp fragment of mitochondrial gene of cytochrome b was confirmed as appropriate approach, because it allowed the assignment of museum samples to previously described genetic lineages. Massive parallel sequencing was also able to successfully overcome the contamination by non-rodent DNA.

Citovat

AGHOVÁ, Tatiana; Dagmar ČÍŽKOVÁ; Radim ŠUMBERA a Josef BRYJA. Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples. In 9th International Conference on Behaviour, Physiology and Genetics of Wildlife. 2013.

@proceedings{1165226,
   author = {Aghová, Tatiana and Čížková, Dagmar and Šumbera, Radim and Bryja, Josef},
   booktitle = {9th International Conference on Behaviour, Physiology and Genetics of Wildlife},
   keywords = {DNA barcoding, next-generation sequencing, museum samples, rodents},
   title = {Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples},
   year = {2013}
}

TY  - CONF
ID  - 1165226
AU  - Aghová, Tatiana - Čížková, Dagmar - Šumbera, Radim - Bryja, Josef
PY  - 2013
TI  - Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples
KW  - DNA barcoding, next-generation sequencing, museum samples, rodents
N2  - DNA barcoding allowed the genetic identification of organisms based on short sequence of DNA. In last years this method has been boosted by continuing advances in sequencing technology. The so-called next-generation sequencing (NGS) delivers massive amount of DNA sequences at a reasonable cost and level of effort. In our study, we used 454 pyrosequencing to genotype ancient DNA (including type material) with the aim to analyse the distributional pattern of genetic lineages of rodents in Eastern Africa. Rodents are very suitable model organisms for phylogeographical study, but material from inaccessible areas is often limited only to old museum collections. The collections of African rodents from museums in Paris (MHNM) and Tervuren (RMCA) provided unique material from large geographical area, including localities that are not feasible to sample today. Even if the DNA was often degraded, minibarcoding based on 136 bp fragment of mitochondrial gene of cytochrome b was confirmed as appropriate approach, because it allowed the assignment of museum samples to previously described genetic lineages. Massive parallel sequencing was also able to successfully overcome the contamination by non-rodent DNA.
ER  -

AGHOVÁ, Tatiana; Dagmar ČÍŽKOVÁ; Radim ŠUMBERA a Josef BRYJA. Analysis of distribution of genetic lineages of African rodents – DNA barcoding using next-generation sequencing and museum samples. In \textit{9th International Conference on Behaviour, Physiology and Genetics of Wildlife}. 2013.

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