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 PSIII-14 Genetic Diversity and Haplogroup Distribution of Asian Chicken Populations using Mitochondrial DNA sequence

2020 ◽  
Vol 98 (Supplement_4) ◽  
pp. 236-236
Author(s):  
Hee-Jong Roh ◽  
Chang-Yeon Cho ◽  
Seung-Chang Kim ◽  
Dong-Kyo Kim ◽  
Jinwook Lee ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Rhode Island ◽  
Reference Data ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Loop Region ◽  
Red Jungle Fowl ◽  
D Loop ◽  
Mtdna Diversity

Abstract Estimating the genetic diversity and origins is critical for the identification and conservation of valuable animal genetic resources. Mitochondrial DNA (mtDNA) polymorphisms have played a significant role in tracing the origin of specific breeds and the genetic diversity of domestic chicken and other livestock species due to their maternal inheritance, greater rate of substitution relative to unclear genes, and much lower rate of recombination. In this study, we analyzed the mtDNA D-loop region of 457 genomic DNA samples from 28 Asian chicken populations (Korea: 6, Laos: 4, Bangladesh: 3, Cambodia: 3, Indonesia: 3, Vietnam: 2, Kyrgyzstan: 1, Mongolia: 1, Nepal: 1, Sri Lanka: 1 and White Leghorn, Cornish, Rhode Island Red) from ten Asian countries to clarify their genetic diversity and phylogenetic relationships. In addition, 49 reference data (43: Oka et al data, 6: red jungle fowl) were used. We found 82 haplotypes defined by 81 variable sites. Overall haplotype and nucleotide diversity were 0.978±0.01 and 0.0018, respectively. Phylogenetic analyses revealed seven haplogroups (Type A-G). The most of Asian chickens were included in haplogroup A(44.9%), B(22.8%), C(19.3%). Haplogroup F did not belong to any Asian chicken populations (include only 2 reference data). Mongolia chickens were only clustered in haplogroup A and Indonesian chickens did only haplogroup C. About half of Kyrgyzstani chicken populations (43.4%) were clustered in haplogroup E. Vietnamese chicken populations belong to all haplogroup except F. In case of red jungle fowl, G.g.gallus and G.g.bankiva were clustered in haplogroup C. G.g.spadiceus was clusterd in haplogroup E or A. As a result, it was possible to identify the mtDNA diversity and origin of Asian chicken populations. In future studies, it is necessary to understand the origin of each haplogroup by adding more reference data and red jungle fowl sequence data.

Genetic diversity and origin of mitochondria DNA D-loop region of some Chinese indigenous cattle breeds

2009 ◽  
Vol 31 (2) ◽  
pp. 160-168 ◽  
Author(s):  
Gui-Xiang ZHANG ◽  
You-Min ZHENG ◽  
Zhi-Gang WANG ◽  
Xu HAN ◽  
Shan-Gang JIA ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Indigenous Cattle ◽  
Cattle Breeds ◽  
Loop Region ◽  
D Loop ◽  
Mitochondria Dna

scholarly journals Genetic Diversity of Maternal Lineage in the Endangered Kiso Horse Based on Polymorphism of the Mitochondrial DNA D-Loop Region

2014 ◽  
Vol 76 (11) ◽  
pp. 1451-1456 ◽  
Author(s):  
Masaki TAKASU ◽  
Namiko ISHIHARA ◽  
Teruaki TOZAKI ◽  
Hironaga KAKOI ◽  
Masami MAEDA ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Maternal Lineage ◽  
Loop Region ◽  
D Loop

scholarly journals Genetic Diversities and Historical Dynamics of Native Ethiopian Horse Populations (Equus caballus) Inferred from Mitochondrial DNA Polymorphisms

Genes ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 155
Author(s):  
Kefena Effa ◽  
Sonia Rosenbom ◽  
Jianlin Han ◽  
Tadelle Dessie ◽  
Albano Beja-Pereira
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Genetic Differentiation ◽  
Sequence Divergence ◽  
Dna Polymorphisms ◽  
Base Pairs ◽  
Feral Horses ◽  
Domestic Horses ◽  
D Loop ◽  
Diversity Estimates

Matrilineal genetic diversity and relationship were investigated among eight morphologically identified native Ethiopian horse populations using polymorphisms in 46 mtDNA D-loop sequences (454 base pairs). The horse populations identified were Abyssinian, Bale, Borana, Horro, Kafa, Kundido feral horses, Ogaden and Selale. Mitochondrial DNA D-loop sequences were characterized by 15 variable sites that defined five different haplotypes. All genetic diversity estimates, including Reynolds’ linearized genetic distance, genetic differentiation (FST) and nucleotide sequence divergence (DA), revealed a low genetic differentiation in native Ethiopian horse populations. However, Kundido feral and Borana domestic horses were slightly diverged from the rest of the Ethiopian horse populations. We also tried to shed some light on the matrilineal genetic root of native Ethiopian horses from a network constructed by combining newly generated haplotypes and reference haplotypes deposited in the GenBank for Eurasian type Turkish Anatolian horses that were used as a genetic conduit between Eurasian and African horse populations. Ninety-two haplotypes were generated from the combined Ethio-Eurasian mtDNA D-loop sequences. A network reconstructed from the combined haplotypes using Median-Joining algorithm showed that haplotypes generated from native Ethiopian horses formed separate clusters. The present result encourages further investigation of the genetic origin of native African horses by retrieving additional mtDNA sequences deposited in the GenBank for African and Eurasian type horses.

Genetic diversity in mitochondrial DNA D-loop region of indigenous pig breeds of India

2022 ◽  
Vol 101 (1) ◽  
Author(s):  
Rongala Laxmivandana ◽  
Yoya Vashi ◽  
Dipjyoti Kalita ◽  
Santanu Banik ◽  
Nihar Ranjan Sahoo ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Pig Breeds ◽  
Loop Region ◽  
D Loop

scholarly journals Genetic diversity of Myanmar cattle breeds using complete mitochondrial D-loop sequence

2018 ◽  
Vol 46 (2) ◽  
pp. 57-67 ◽  
Author(s):  
Moe LWIN ◽  
Su Lai Yee MON ◽  
Yukio NAGANO ◽  
Kotaro KAWABE ◽  
Hideyuki MANNEN ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Cattle Breeds ◽  
Loop Sequence ◽  
D Loop

scholarly journals Genetic diversity study in Hungarian coldblooded horses

2017 ◽  
pp. 29-34
Author(s):  
Nikolett Csizmár ◽  
Sándor Mihók ◽  
András Jávor ◽  
Szilvia Kusza
Keyword(s):  
High Performance ◽  
Nucleotide Diversity ◽  
Base Pairs ◽  
Loop Region ◽  
Horse Breeding ◽  
D Loop ◽  
Hungarian Population ◽  
Genetic Diversity Study ◽  
Feeding Technology ◽  
Diversity Study

Because of the feeding technology innovation, accelerated transport and communication facilities breeds of high performance breeds replaced local autochone breeds worldwide. These latter species however have an important role in gene conservation. Hungarian cold-blooded horse breeding stock are lacking pedigree, the actual founder breed mares are not known. For this reason, it is an major priority defining the genetic backround of the existing flock, for that breeding could operate with purposeful using of origin maternal founders. In the present study 195 cold-blooded Hungarian mares tail and mane sample were analized. Our analysis was carried out between 15531–15752 base pairs in mithocrondial DNA D-loop region, which reported a total of 222 base pairs. Fourtyone polymorphic sites were determined, which resulted in 39 haplotypes (h=39). The average pairwise differences were k=6.825. High haplotype and nucleotide diversity values were observed (Hd=0.968±0.003, π=0.026±0.003). Based on the previously defined variable positions of haplotypes defined by Jansen et al (2002), we groupped our haplotypes into haplogroups. 23 percent of the studied population (45 mares) belonged to haplogroup F1. Nearly 97% of the analyzed population was classified into one of eight  haplogroups defined by Jansen.et al. (2002). This study gives genetic information nearly 25% of the Hungarian population. Another possibility would be patterning more mares or involving more genetic marker in the study which will assuming the possibility of a more comprehensive analysis.

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