Molecular polymorphism of MHC-DRB gene and genetic diversity analysis of captive forest musk deer (Moschus berezovskii)

Shan, Xia; Fan, Zhenxin; Zhang, Xiuyue; Chen, Jie; Zhang, Xiaojuan; Yue, Bisong

doi:10.1016/j.bse.2016.05.005

Cited by 3 publications

(4 citation statements)

References 53 publications

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“…Similar to other previous studies on Cervidae (e.g. Ditchkoff et al 2005;Fernández de Mera et al 2009 a,b;Kennedy et al 2011, Cai et al 2015, Xia et al 2016, DNA from each individual was genotyped by amplifying exon 2 of the MHC DRB using the cattle-specific primers LA31 and LA32 (Sigurdardóttir et al, 1991). As this was the first assessment of MHC diversity in wild populations of Scottish red deer and we did not have any knowledge on the number and identity of alleles expected, two approaches were used for the genotyping: traditional cloning followed by Sanger sequencing and Roche 454 second-generation sequencing.…”

Section: Mhc Drb Exon 2 Genotypingsupporting

confidence: 92%

First assessment of MHC diversity in wild Scottish red deer populations

et al. 2019

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Control and mitigation of disease in wild ungulate populations is one of the major challenges in wildlife management. Despite the importance of the Major Histocompatibility Complex (MHC) genes for immune response, assessment of diversity on these genes is still rare for European deer populations. Here, we conducted the first assessment of variation at the second exon of the MHC DRB in wild populations of Scottish highland red deer, the largest continuous population of red deer in Europe. Allelic diversity at these loci was high, with 25 alleles identified. Selection analyses indicated c. 22% of amino acids encoded found under episodic positive selection. Patterns of MHC allelic distribution were not congruent with neutral population genetic structure (estimated with 16 nuclear microsatellite markers) in the study area; the latter showing a marked differentiation between populations located at either side of the Great Glen. This study represents a first step towards building an immunogenetic map of red deer populations across Scotland to aid future management strategies for this ecologically and economically important species.

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Section: Mhc Drb Exon 2 Genotypingsupporting

confidence: 92%

First assessment of MHC diversity in wild Scottish red deer populations

et al. 2019

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“…Furthermore, the values of Tajima’s D in the L group (including individuals who secreted low amounts of musk: 1 g-7 g) and the P group were significantly higher than those in other groups, which may be associated with the accumulation of low-frequency detrimental mutations in these groups. A population with lower genetic diversity and a higher detrimental mutation tends to be more susceptible to pathogens, and the resulting disorders may be the best explanation for the phenomenon (Xia et al 2016).…”

Section: Discussionmentioning

confidence: 99%

“…Previous studies have assessed the genetic diversity of FM Deer by using a variety of molecular markers, such as amplified fragment length polymorphism (AFLP) (Zhao et al 2011), mitochondria DNA (mt DNA) (Peng et al 2009; Feng et al 2016), microsatellite (Guan et al 2009; Zhao et al 2011; Huang et al 2013) and major histocompatibility complex (MHC) genes (Yao et al 2015; Xia et al 2016). These studies indicated that a risk of diversity loss existed in domestic FM Deer.…”

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confidence: 99%

Analysis of Genetic Diversity and Population Structure in Three Forest Musk Deer Captive Populations with Different Origins

Fan

Zheng

Wang³

et al. 2019

G3 Genes|Genomes|Genetics

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Musk deer (Moschidae), whose secretion is an expensive and irreplaceable component of traditional medicine, have become endangered in the wild due to habitat fragmentation and over-exploitation. In recent years, China has had success in the artificial breeding of forest musk deer, thus relieving the pressure on wild populations. However, many farmed populations are experiencing degradation, and little genetic information is available for conservation management. In this study, we selected 274 individuals from three typical captive populations (originated from the Ta-pa Mountains (Tp), the midrange of the Qinling Mountains (Ql) and the Western Sichuan Plateau (WS), respectively) to evaluate the genetic variations. A total of more than 3.15 billion high-quality clean reads and 4.37 million high-quality SNPs were generated by RAD sequencing. Based on the analysis, we found that captive forest musk deer populations exhibit a relatively low level of genetic diversity. Ql displayed a higher level of genetic diversity than the Tp and WS populations. Tp and WS had experienced population bottlenecks in the past as inferred from the values of Tajima’s D. There were high levels of heterozygote deficiency caused by inbreeding within the three populations. Population structure analysis suggested that the three populations have evolved independently, and a moderate amount of genetic differentiation has developed, although there was a low level of gene flow between the Ql and Tp populations. Furthermore, the average quantities of musk secreted by musk deer in the Tp and WS populations were significantly higher than that in the Ql population. The present genetic information should be considered in management plans for the conservation and utilization of musk deer from captive breeding.

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“…Two studies have assessed the genetic diversity of captive populations of FMD using small numbers of molecular markers 9 , 24 . Due to the key role that the major histocompatibility complex (MHC) plays in immune responses, the genetic diversity of the MHC class II proteins was linked to abscesses in FMD 25 – 27 and it has been suggested that the MHC plays a critical role in determining the resistance or susceptibility of an individual FMD to abscesses 26 . However, knowledge of the mechanism of abscess formation in FMD is limited, partly due to the lack of understanding of how gene regulation impacts disease formation and progression.…”

Section: Introductionmentioning

confidence: 99%

Blood transcriptomics of captive forest musk deer (Moschus berezovskii) and possible associations with the immune response to abscesses

Sun

Cai

Jin

et al. 2018

Sci Rep

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Forest musk deer (Moschus berezovskii; FMD) are both economically valuable and highly endangered. A problem for FMD captive breeding programs has been the susceptibility of FMD to abscesses. To investigate the mechanisms of abscess development in FMD, the blood transcriptomes of three purulent and three healthy individuals were generated. A total of ~39.68 Gb bases were generated using Illumina HiSeq 4000 sequencing technology and 77,752 unigenes were identified after assembling. All the unigenes were annotated, with 63,531 (81.71%) mapping to at least one database. Based on these functional annotations, 45,798 coding sequences (CDS) were detected, along with 12,697 simple sequence repeats (SSRs) and 65,536 single nucleotide polymorphisms (SNPs). A total of 113 unigenes were found to be differentially expressed between healthy and purulent individuals. Functional annotation indicated that most of these differentially expressed genes were involved in the regulation of immune system processes, particularly those associated with parasitic and bacterial infection pathways.

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Molecular polymorphism of MHC-DRB gene and genetic diversity analysis of captive forest musk deer (Moschus berezovskii)

Cited by 3 publications

References 53 publications

First assessment of MHC diversity in wild Scottish red deer populations

First assessment of MHC diversity in wild Scottish red deer populations

Analysis of Genetic Diversity and Population Structure in Three Forest Musk Deer Captive Populations with Different Origins

Blood transcriptomics of captive forest musk deer (Moschus berezovskii) and possible associations with the immune response to abscesses

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