scholarly journals The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing

2013 ◽  
Vol 22 (11) ◽  
pp. 2864-2883 ◽  
Author(s):  
Julian Catchen ◽  
Susan Bassham ◽  
Taylor Wilson ◽  
Mark Currey ◽  
Conor O'Brien ◽  
...  
Keyword(s):  
Population Structure ◽  
Dna Sequencing ◽  
Restriction Site ◽  
Threespine Stickleback ◽  
Colonization History ◽  
History Of

Population structure and colonization history of the olive fly, Bactrocera oleae (Diptera, Tephritidae)

2005 ◽  
Vol 14 (9) ◽  
pp. 2729-2738 ◽  
Author(s):  
FRANCESCO NARDI ◽  
ANTONIO CARAPELLI ◽  
ROMANO DALLAI ◽  
GEORGE K. RODERICK ◽  
FRANCESCO FRATI
Keyword(s):  
Population Structure ◽  
Bactrocera Oleae ◽  
Colonization History ◽  
Olive Fly ◽  
History Of

Population structure, dispersal and colonization history of the garden bumblebee Bombus hortorum in the Western Isles of Scotland

2011 ◽  
Vol 12 (4) ◽  
pp. 867-879 ◽  
Author(s):  
D. Goulson ◽  
J. C. Kaden ◽  
O. Lepais ◽  
G. C. Lye ◽  
B. Darvill
Keyword(s):  
Population Structure ◽  
Colonization History ◽  
History Of

scholarly journals Analysis of Population Structure and Differentially Selected Regions in Guangxi Native Breeds by Restriction Site Associated with DNA Sequencing

2019 ◽  
Vol 10 (1) ◽  
pp. 379-386
Author(s):  
Zhuliang Yang ◽  
Jixian Deng ◽  
Dongfeng Li ◽  
Tiantian Sun ◽  
Li Xia ◽  
...  
Keyword(s):  
Population Structure ◽  
Dna Sequencing ◽  
Restriction Site ◽  
Genomic Information ◽  
Indigenous Chicken ◽  
Autosomal Snps ◽  
Tree Distribution ◽  
Go Enrichment ◽  
Significant Difference ◽  
Native Chickens

Guangxi indigenous chicken breeds play a very important role in promoting the high-quality development of the broiler industry in China. However, studies on genomic information of Guangxi indigenous chicken to date remain poorly explored. To decipher the population genetic structure and differentially selected regions (DSRs) in Guangxi indigenous chickens, we dug into numerous SNPs from seven Guangxi native chickens (GX) by employing the restriction site associated with DNA sequencing (RAD-seq) technology. Another three breeds, Cobb, White Leghorn, and Chahua (CH) chicken, were used as a control. After quality control, a total of 185,117 autosomal SNPs were kept for further analysis. The results showed a significant difference in population structure, and the control breeds were distinctly separate from the Guangxi native breeds, which was also strongly supported by the phylogenetic tree. Distribution of FST indicated that there were three SNPs with big genetic differentiation (FST value all reach to 0. 9427) in GX vs. CH group, which were located on chr1-96,859,720,chr4-86,139,601, and chr12-8,128,322, respectively. Besides, we identified 717 DSRs associated with 882 genes in GX vs. Cobb group, 769 DSRs with 476 genes in GX vs. Leghorn group, and 556 DSRs with 779 genes in GX vs. CH group. GO enrichment showed that there were two significant terms, namely GPI-linked ephrin receptor activity and BMP receptor binding, which were enriched in GX vs. Leghorn group. In conclusion, this study suggests that Guangxi native chickens have a great differentiation with Cobb and Leghorn. Our findings would be beneficial to fully evaluate the genomic information on Guangxi native chicken and facilitate the application of these resources in chicken breeding.

scholarly journals Population structure of Apodemus flavicollis and comparison to Apodemus sylvaticus in northern Poland based on RAD-seq

2019 ◽  
Author(s):  
Maria Luisa Martin Cerezo ◽  
Marek Kucka ◽  
Karol Zub ◽  
Yingguang Frank Chan ◽  
Jarosław Bryk
Keyword(s):  
Population Structure ◽  
Restriction Site ◽  
Population Genomics ◽  
Large Degree ◽  
Apodemus Flavicollis ◽  
Ecological Genomics ◽  
Genome Data ◽  
Northern Poland ◽  
Show Evidence ◽  
History Of

AbstractBackgroundMice of the genus Apodemus are one the most common mammals in the Palaearctic region. Despite their broad range and long history of ecological observations, there are no whole-genome data available for Apodemus, hindering our ability to further exploit the genus in evolutionary and ecological genomics context.ResultsHere we present results from the double-digest restriction site-associated DNA sequencing (ddRAD-seq) on 72 individuals of A. flavicollis and 10 A. sylvaticus from four populations, sampled across 500 km distance in northern Poland. Our data present clear genetic divergence of the two species, with average p-distance, based on 21377 common loci, of 1.51% and a mutation rate of 0.0011 - 0.0019 substitutions per site per million years. We provide a catalogue of 117 highly divergent loci that enable genetic differentiation of the two species in Poland and to a large degree of 20 unrelated samples from several European countries and Tunisia. We also show evidence of admixture between the three A. flavicollis populations but demonstrate that they have negligible average population structure, with largest pairwise FST < 0.086.ConclusionOur study demonstrates the feasibility of ddRAD-seq in Apodemus and provides the first insights into the population genomics of the species.

A brief history of (DNA sequencing) time

2007 ◽  
Vol 8 (S1) ◽  
pp. S21-S21
Author(s):  
Elaine R. Mardis
Keyword(s):  
Dna Sequencing ◽  
History Of
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