scholarly journals Assessment of Genetic Diversity and Phylogenetic Relationship of Iranian Indigenous Chickens Based on Mitochondrial D-Loop Sequences

2018 ◽  
Vol 8 (17) ◽  
pp. 140-148 ◽  
Author(s):  
Kasra Ahmadian ◽  
Ghodrat Rahimi Mianji ◽  
Hadi Sayahzadeh ◽  
Hamid Deldar
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Relationship ◽  
Indigenous Chickens ◽  
D Loop ◽  
Relationship Of

scholarly journals Evaluation of the genetic diversity of six Chinese indigenous chickens

2020 ◽  
Vol 33 (10) ◽  
pp. 1566-1572
Author(s):  
Yuzhu Sha ◽  
Caixia Gao ◽  
Meimei Liu ◽  
Shengguo Zhao
Keyword(s):  
Genetic Diversity ◽  
Genetic Resources ◽  
Indian Subcontinent ◽  
Coastal Region ◽  
Principal Component ◽  
Sharp Decrease ◽  
Haplotype Sharing ◽  
Indigenous Chickens ◽  
D Loop ◽  
Commercial Chickens

Objective: The extensive breeding of commercial chickens has led to a sharp decrease in the resources of many indigenous chickens, especially the indigenous chickens in the southeastern coastal region, which are on the verge of extinction, and the indigenous chickens in the northwestern region of China, which are also at risk. However, there are few reports on the evaluation of genetic diversity and conservation of genetic resources of indigenous chickens in remote areas in the Northwest of China.Methods: In the present study, the genetic diversity and phylogenetic relationship of six indigenous chickens from different regions were studied based on variation in mitochondrial DNA control region (D-loop), and the degree of introgression from commercial breeds into these chickens was determined by the amount of haplotype sharing between indigenous and commercial breeds.Results: Twenty-five polymorphic sites and 25 haplotypes were detected in 206 individuals. Principal component analysis showed that the Jingning chicken had the highest genetic diversity among the six indigenous chickens. According to the degree of introgression, the six indigenous breeds may be involved in haplotype sharing with commercial breeds, and the introgression from commercial chickens into the Haidong chicken is the most serious.Conclusion: The genetic uniqueness of indigenous chickens has been eroded, so it is necessary to consider the protection of their genetic resources. Phylogenetic analysis suggests that the six indigenous chickens have two major matrilineal origins: one from Yunnan or its surrounding areas in China and the other from the Indian subcontinent.

scholarly journals Mitochondrial DNA-based genetic evaluation of autochthonous cattle breeds in Croatia

2014 ◽  
Vol 59 (No. 11) ◽  
pp. 519-528 ◽  
Author(s):  
A. Ivanković ◽  
S. Paprika ◽  
J. Ramljak ◽  
P. Dovč ◽  
M. Konjačić
Keyword(s):  
Genetic Diversity ◽  
Conservation Management ◽  
Large Fraction ◽  
Base Pairs ◽  
Cattle Breeds ◽  
Loop Region ◽  
D Loop ◽  
Mtdna Diversity ◽  
High Level ◽  
Relationship Of

Genetic diversity and phylogenetic relationship of three Croatian autochthonous cattle breeds was analyzed using a sequence of the mtDNA D-loop region. Among Busha, Istrian, and Slavonian Syrmian Podolian cattle 146 unrelated animals were tested. The sequencing of 780 base pairs of the mtDNA D-loop region revealed 39 polymorphic sites representing 28 different haplotypes. The highest numbers of haplotypes were observed in the Busha population and the lowest in the population of Slavonian Syrmian Podolian cattle, while the highest level of sequence diversity within a population was observed in the Istrian cattle. Our results indicate a high level of mtDNA diversity in the populations of Busha and Istrian cattle and a low level of preserved diversity in the population of Slavonian Syrmian Podolian cattle. The sequence analysis showed substantial subdivision between the breeds (F<sub>ST</sub> = 0.1434), and a large fraction of variation within the breeds. Although the dominant haplotypes are classified as the T3 haplogroup, some of the haplotypes are classified as the rarer T2 and T5 haplogroups. Genetic information based on mtDNA typing has a great importance for the future conservation management and preservation of genetic diversity in autochthonous cattle breeds. &nbsp;

scholarly journals Genetic diversity and phylogenetic relationship of nine sheep populations based on microsatellite markers

2021 ◽  
Vol 64 (1) ◽  
pp. 7-16
Author(s):  
Qing Xia ◽  
Xiangyu Wang ◽  
Zhangyuan Pan ◽  
Rensen Zhang ◽  
Caihong Wei ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Relationship ◽  
Gene Diversity ◽  
Polymorphic Information Content ◽  
Group Method ◽  
Pair Group ◽  
Introduced Populations ◽  
Unbiased Gene ◽  
Relationship Of ◽  
Hu Sheep

Abstract. The objective of this study was to assess the genetic diversity and phylogenetic relationship of nine sheep populations, including two famous high prolific populations and seven popular mutton populations raised in China. Overall, these sheep populations in this study exhibited a rich genetic diversity. Both the expected heterozygosity and Nei's unbiased gene diversity ranged from 0.64 to 0.75, with the lowest value found in Dorset sheep (DST) and the highest in Hu sheep (HUS) and Ba Han sheep (BAS). The polymorphic information content (PIC) varied between 0.59 in DST and 0.71 in HUS and BAS. Specifically, for individual breeds, the small-tail Han sheep (STH) and the four introduced populations did not display the expected diversity; therefore more attention should be paid to the maintenance of diversity during management of these populations. The results of un-weighted pair-group method (UPGMA) phylogenetic tree and structure analysis indicated that the nine investigated populations can be divided into two groups. Suffolk (SUF) and DST were clustered in one group, and the other group can be further divided into three clusters: German Mutton Merino (GMM)–BAS–Bamei Mutton sheep (BAM), HUS–STH and Du Han (DOS)–Dorper (DOP). This clustering result is consistent with sheep breeding history. TreeMix analysis also hinted at the possible gene flow from GMM to SUF. Together, an in-depth view of genetic diversity and genetic relationship will have important implications for breed-specific management.

scholarly journals Genetic Diversity and Relationship of China’s Bergenia Germplasm Revealed by Intersimple Sequence Repeat Markers

2021 ◽  
pp. 1-7
Author(s):  
Xiuli Lv ◽  
Yuan Guan ◽  
Jian Wang ◽  
Yanwei Zhou ◽  
Qunlu Liu ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Phylogenetic Relationship ◽  
Theoretical Basis ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Similarity Coefficient ◽  
Sequence Repeat ◽  
Relationship Of ◽  
Selection Of

To reveal the genetic diversity and genetic relationships of China’s Bergenia germplasm, 28 Bergenia accessions from different regions in China were analyzed by 24 intersimple sequence repeat (ISSR) markers. The results showed that 318 sites were amplified in all germplasm, including 307 polymorphic sites, and the percentage of polymorphic sites was 96.54%. Cluster analysis showed that the 28 accessions were divided into three categories, with a similarity coefficient of 0.5475. Bergenia purpurascens was clustered into one category; B. scopulosa was clustered into one category; and B. tianquaninsis, B. emeiensis, B. stracheyi, and B. crassifolia were clustered into one category. The results of the cluster analysis indicated that the 28 accessions were not completely classified by origin. Using the ISSR marker technique to analyze the phylogenetic relationship of Bergenia germplasm is helpful for identifying valuable resources and providing a theoretical basis for the selection of breeding parents.

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