Selection signatures of litter size in Dazu black goats based on a whole genome sequencing mixed pools strategy

Guang‐Xin, E; Zhao, Yongju; Huang, Yongfu

doi:10.1007/s11033-019-04904-6

Cited by 21 publications

(7 citation statements)

References 40 publications

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“…Previous studies have shown that STK3 responded to E and P hormones in the mouse uterine epithelium ( Moon et al, 2019 , 2022 ). Moreover, STK3 was indicated as one of the key candidate genes for litter size performance in goats ( E et al, 2019 ). ADGRB3 and PPARGC1A were both associated with ovary-related disease and might play some roles in follicular growth ( Wirtenberger et al, 2006 ; San-Millán and Escobar-Morreale, 2010 ; Lei et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Integration of transcriptome sequencing and whole genome resequencing reveal candidate genes in egg production of upright and pendulous-comb chickens

Cai¹,

Wang²,

Zhou³

et al. 2023

Poultry Science

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Section: Discussionmentioning

confidence: 99%

Integration of transcriptome sequencing and whole genome resequencing reveal candidate genes in egg production of upright and pendulous-comb chickens

Cai¹,

Wang²,

Zhou³

et al. 2023

Poultry Science

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“…In MNT_I, the most shared ROHs harboured, among others, the genes TNP1 and SMARCAL1, respectively associated to spermiogenesis [ 41 ] and genome integrity [ 42 ] ( Supplementary Table S3 ). The highly shared HRR on chr6, instead, harboured the gene PPP3CA, previously associated to fecundity traits and litter size in small ruminants [ 43 , 44 ], while the gene GPCPD1 found in chr13 HRR was identified as playing a potential role in the metabolism of lipids and the lipoprotein pathway in sheep [ 45 ]. These results may suggest that both the fixation of specific variants in genes related to reproduction and integrity of the genome on the one hand, and the maintenance of consistent heterozygosity of genes involved in fecundity and energy metabolism on the other hand, may have played a role in the adaptation to the harsh environment of the island despite recurrent demographic fluctuations.…”

Section: Discussionmentioning

confidence: 99%

The SNP-Based Profiling of Montecristo Feral Goat Populations Reveals a History of Isolation, Bottlenecks, and the Effects of Management

Somenzi

Senczuk

Ciampolini

et al. 2022

Genes

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The Montecristo wild goat is an endangered feral population that has been on the homonymous island in the Tuscan Archipelago since ancient times. The origins of Montecristo goats are still debated, with authors dating their introduction either back to Neolithic times or between the 6th and 13th century of the Common Era. To investigate the evolutionary history and relationships of this population we assembled a 50K SNP dataset including 55 Mediterranean breeds and two nuclei of Montecristo goats sampled on the island and from an ex situ conservation project. Diversity levels, gene flow, population structure, and genetic relationships were assessed through multiple approaches. The insular population scored the lowest values of both observed and expected heterozygosity, highlighting reduced genetic variation, while the ex situ nucleus highlighted a less severe reduction. Multivariate statistics, network, and population structure analyses clearly separated the insular nucleus from all other breeds, including the population of Montecristo goats from the mainland. Moreover, admixture and gene flow analyses pinpointed possible genetic inputs received by the two Montecristo goat nuclei from different sources, while Runs of Homozygosity (ROHs) indicated an ancient bottleneck/founder effect in the insular population and recent extensive inbreeding in the ex situ one. Overall, our results suggest that Montecristo goats experienced several demographic fluctuations combined with admixture events over time and highlighted a noticeable differentiation between the two nuclei.

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“…Using zebrafish as a model, PDE5A was found to be expressed only in oocytes and was able to maintain oocyte maturation ( 55 ). PLCB1 was identified as a candidate gene for litter size ( 56 ). Significant changes in the expression of DUSP16 during the ovulation cascade may regulate its course ( 57 ).…”

Section: Discussionmentioning

confidence: 99%

Photoperiods induced the circRNA differential expression in the thyroid gland of OVX+E2 ewes

Wang

et al. 2022

Front. Endocrinol.

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Circular RNAs (circRNAs) are non-coding RNAs newly identified and play important roles in RNA regulation. However, little is known regarding photoperiods induced circRNAs in the thyroid gland. In this study, we performed a comprehensive analysis of circRNA profiles in the thyroid gland of OVX+E2 ewes at different photoperiods by whole transcriptome sequencing. A total of 37,470 novel circRNAs were detected in different photoperiods (42 days of short photoperiod treatment, SP42; 42 days of long photoperiod treatment, LP42; SP42 transfer to LP42, SPLP42), with a total of 817 circRNAs for SP42-LP42 (down: 132; up: 114), LP42-SPLP42 (down: 136; up: 112) and SP42-SPLP42 (down: 182; up: 141) having differentially expressed. Functional enrichment annotation analysis of DE-circRNAs for GO and KEGG by R package, features that influence photoperiod response in Sunite ewes through the Inositol phosphate metabolism, cGMP-PKG signaling pathway, Calcium signaling pathway, MAPK signaling pathway, and Oocyte meiosis. In addition, competitive endogenous RNA (ceRNA) network analysis revealed target binding sites for identified miRNAs in DE-cirRNAs such as oar-miR-10b, oar-miR-200c, oar-miR-21, oar-miR-370-3p, oar-miR-377-3p, oar-miR-181a, oar-miR-432, and oar-miR-495-3p. These results of this study will provide some new information for understanding circRNA function as well as the changes in the sheep thyroid gland under different photoperiods.

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Selection signatures of litter size in Dazu black goats based on a whole genome sequencing mixed pools strategy

Cited by 21 publications

References 40 publications

Integration of transcriptome sequencing and whole genome resequencing reveal candidate genes in egg production of upright and pendulous-comb chickens

Integration of transcriptome sequencing and whole genome resequencing reveal candidate genes in egg production of upright and pendulous-comb chickens

The SNP-Based Profiling of Montecristo Feral Goat Populations Reveals a History of Isolation, Bottlenecks, and the Effects of Management

Photoperiods induced the circRNA differential expression in the thyroid gland of OVX+E2 ewes

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