scholarly journals RAD sequencing for the development of microsatellite markers for identification of Malaysian taro cultivars

Author(s):  
Shahril Ab Razak ◽  
Mohd Norfaizal Ghazalli ◽  
Nor Helwa Ezzah Nor Azman ◽  
Alny Marlynni Abd Majid ◽  
Siti Norhayati Ismail
2017 ◽  
Author(s):  
Derrick J. Thrasher ◽  
Bronwyn G. Butcher ◽  
Leonardo Campagna ◽  
Michael S. Webster ◽  
Irby J. Lovette

AbstractInformation on genetic relationships among individuals is essential to many studies of the behavior and ecology of wild organisms. Parentage and relatedness assays based on large numbers of SNP loci hold substantial advantages over the microsatellite markers traditionally used for these purposes. We present a double-digest restriction site-associated DNA sequencing (ddRAD-seq) analysis pipeline that, as such, simultaneously achieves the SNP discovery and genotyping steps and which is optimized to return a statistically powerful set of SNP markers (typically 150-600 after stringent filtering) from large numbers of individuals (up to 240 per run). We explore the tradeoffs inherent in this approach through a set of experiments in a species with a complex social system, the variegated fairy-wren (Malurus lamberti), and further validate it in a phylogenetically broad set of other bird species. Through direct comparisons with a parallel dataset from a robust panel of highly variable microsatellite markers, we show that this ddRAD-seq approach results in substantially improved power to discriminate among potential relatives and considerably more precise estimates of relatedness coefficients. The pipeline is designed to be universally applicable to all bird species (and with minor modifications to many other taxa), to be cost- and time-efficient, and to be replicable across independent runs such that genotype data from different study periods can be combined and analyzed as field samples are accumulated.


Heliyon ◽  
2020 ◽  
Vol 6 (9) ◽  
pp. e05077
Author(s):  
Shahril Ab Razak ◽  
Salehudin Mad Radzuan ◽  
Norkhairi Mohamed ◽  
Nor Helwa Ezzah Nor Azman ◽  
Alny Marlynni Abd Majid ◽  
...  

2020 ◽  
Vol 36 (2) ◽  
pp. 243-245
Author(s):  
Hongyi Liu ◽  
Qingzheng Zhang ◽  
Chenghe Sun ◽  
Nan Xu ◽  
Peixian Chen ◽  
...  

2001 ◽  
Vol 120 (5) ◽  
pp. A599-A599
Author(s):  
C ARNOLD ◽  
A GOEL ◽  
J CARETHERS ◽  
L WASSERMAN ◽  
C COMPTON ◽  
...  

Diabetes ◽  
1996 ◽  
Vol 45 (2) ◽  
pp. 267-269 ◽  
Author(s):  
N. Iwasaki ◽  
M. Kawamura ◽  
K. Yamagata ◽  
N. J. Cox ◽  
S. Karibe ◽  
...  

Author(s):  
V. Dodokhov ◽  
N. Pavlova ◽  
T. Rumyantseva ◽  
L. Kalashnikova

The article presents the genetic characteristic of the Chukchi reindeer breed. The object of the study was of the Chukchi reindeer. In recent years, the number of reindeer of the Chukchi breed has declined sharply. Reduced reindeer numbers could lead to biodiversity loss. The Chukchi breed of deer has good meat qualities, has high germination viability and is adapted in adverse tundra conditions of Yakutia. Herding of the Chukchi breed of deer in Yakutia are engaged only in the Nizhnekolymsky district. There are four generic communities and the largest of which is the agricultural production cooperative of nomadic tribal community «Turvaurgin», which was chosen to assess the genetic processes of breed using microsatellite markers: Rt6, BMS1788, Rt 30, Rt1, Rt9, FCB193, Rt7, BMS745, C 143, Rt24, OheQ, C217, C32, NVHRT16, T40, C276. It was found that microsatellite markers have a wide range of alleles and generally have a high informative value for identifying of genetic differences between animals and groups of animal. The number of identified alleles is one of the indicators of the genetic diversity of the population. The total number of detected alleles was 127. The Chukchi breed of deer is characterized by a high level of heterozygosity, and the random crossing system prevails over inbreeding in the population. On average, there were 7.9 alleles (Na) per locus, and the mean number of effective alleles (Ne) was 4.1. The index of fixation averaged 0.001. The polymorphism index (PIC) ranged from 0.217 to 0.946, with an average of 0.695.


2009 ◽  
Vol 17 (1) ◽  
pp. 82 ◽  
Author(s):  
Liang Hongwei ◽  
Li Zhong ◽  
Luo Xiangzhong ◽  
Wang Changzhong ◽  
Hu Guangfu ◽  
...  

2009 ◽  
Vol 35 (6) ◽  
pp. 1013-1020 ◽  
Author(s):  
Pei-Pei ZHANG ◽  
Xia-Qing WANG ◽  
Yang YU ◽  
Yu YU ◽  
Zhong-Xu LIN ◽  
...  

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