scholarly journals Variants in BMP7 and BMP15 3’-UTRs Associated with Reproductive Traits in a Large White Pig Population

Animals ◽  
2019 ◽  
Vol 9 (11) ◽  
pp. 905 ◽  
Author(s):  
Yin ◽  
Du ◽  
Li ◽  
Pan ◽  
Wu ◽  
...  
Keyword(s):  
Point Mutations ◽  
Reproductive Traits ◽  
Regulatory Elements ◽  
Large White ◽  
Morphogenetic Protein ◽  
Pooled Dna ◽  
Trait Locus ◽  
Whole Genome Resequencing ◽  
Weight Trait ◽  
Large White Pig

Bone morphogenetic protein 7 (BMP7) and BMP15, which encode members of the BMP family, have been identified by whole-genome resequencing as breeding-related genes that overlap with a known quantitative trait locus for reproductive traits. In this study, we investigated the effects of variants at the BMP7 and BMP15 gene loci on sow reproductive traits. We isolated 669 and 1213 bp sequences of the 3’-untranslated region (3’-UTR) of the porcine BMP7 and BMP15 genes, respectively, and detected several RNA regulatory elements, such as miRNA response elements and AU-rich elements. Pooled DNA sequencing identified two novel point mutations (viz., BMP7 c.1569A>G and BMP15 c.2366G>A) in the 3’-UTR. Association analysis showed that the c.1569A>G polymorphism was associated with the litter weight trait in a Large White pig population. Furthermore, analysis of the combined genetic effects revealed that AA/GA and AG/GG were the favorable combined genotypes for the total number of piglets born (TNB) and the total number of piglets born alive (NBA), whereas. Together, our findings confirm that BMP7 and BMP15 are candidate genes for porcine reproductive performance.

Effect of candidate gene polymorphisms on reproductive traits in a Large White pig population

2016 ◽  
Vol 87 (12) ◽  
pp. 1455-1463 ◽  
Author(s):  
Shuji Sato ◽  
Takashi Kikuchi ◽  
Yoshinobu Uemoto ◽  
Satoshi Mikawa ◽  
Keiichi Suzuki
Keyword(s):  
Candidate Gene ◽  
Gene Polymorphisms ◽  
Reproductive Traits ◽  
Large White ◽  
Large White Pig

scholarly journals Genome-wide association study for reproductive traits in a Large White pig population

2018 ◽  
Vol 49 (2) ◽  
pp. 127-131 ◽  
Author(s):  
Y. Wang ◽  
X. Ding ◽  
Z. Tan ◽  
K. Xing ◽  
T. Yang ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Reproductive Traits ◽  
Genome Wide Association ◽  
Large White ◽  
Genome Wide ◽  
Large White Pig

scholarly journals Survey of SNPs Associated with Total Number Born and Total Number Born Alive in Pig

Genes ◽  
2020 ◽  
Vol 11 (5) ◽  
pp. 491 ◽  
Author(s):  
Siroj Bakoev ◽  
Lyubov Getmantseva ◽  
Faridun Bakoev ◽  
Maria Kolosova ◽  
Valeria Gabova ◽  
...  
Keyword(s):  
Production Efficiency ◽  
Association Studies ◽  
Reproductive Traits ◽  
International Studies ◽  
Genome Wide Association Studies ◽  
Large White ◽  
Genome Wide ◽  
Genome Map ◽  
Trait Locus ◽  
The Given

Reproductive productivity depend on a complex set of characteristics. The number of piglets at birth (Total number born, Litter size, TNB) and the number of alive piglets at birth (Total number born alive, NBA) are the main indicators of the reproductive productivity of sows in pig breeding. Great hopes are pinned on GWAS (Genome-Wide Association Studies) to solve the problems associated with studying the genetic architecture of reproductive traits of pigs. This paper provides an overview of international studies on SNP (Single nucleotide polymorphism) associated with TNB and NBA in pigs presented in PigQTLdb as “Genome map association”. Currently on the base of Genome map association results 306 SNPs associated with TNB (218 SNPs) and NBA (88 SNPs) have been identified and presented in the Pig QTLdb database. The results are based on research of pigs such as Large White, Yorkshire, Landrace, Berkshire, Duroc and Erhualian. The presented review shows that most SNPs found in chromosome areas where candidate genes or QTLs (Quantitative trait locus) have been identified. Further research in the given direction will allow to obtain new data that will become an impulse for creating breakthrough breeding technologies and increase the production efficiency in pig farming.

scholarly journals Whole-genome resequencing reveals candidate mutations for pig prolificacy

2017 ◽  
Vol 284 (1869) ◽  
pp. 20172437 ◽  
Author(s):  
Wen-Ting Li ◽  
Meng-Meng Zhang ◽  
Qi-Gang Li ◽  
Hui Tang ◽  
Li-Fan Zhang ◽  
...  
Keyword(s):  
Phenotypic Diversity ◽  
Western Blots ◽  
Chain Reactions ◽  
Polymerase Chain Reactions ◽  
Protein Receptor ◽  
Morphogenetic Protein ◽  
Trait Locus ◽  
Morphological Differences ◽  
Whole Genome Resequencing

Changes in pig fertility have occurred as a result of domestication, but are not understood at the level of genetic variation. To identify variations potentially responsible for prolificacy, we sequenced the genomes of the highly prolific Taihu pig breed and four control breeds. Genes involved in embryogenesis and morphogenesis were targeted in the Taihu pig, consistent with the morphological differences observed between the Taihu pig and others during pregnancy. Additionally, excessive functional non-coding mutations have been specifically fixed or nearly fixed in the Taihu pig. We focused attention on an oestrogen response element (ERE) within the first intron of the bone morphogenetic protein receptor type-1B gene ( BMPR1B ) that overlaps with a known quantitative trait locus (QTL) for pig fecundity. Using 242 pigs from 30 different breeds, we confirmed that the genotype of the ERE was nearly fixed in the Taihu pig. ERE function was assessed by luciferase assays, examination of histological sections, chromatin immunoprecipitation, quantitative polymerase chain reactions, and western blots. The results suggest that the ERE may control pig prolificacy via the cis-regulation of BMPR1B expression. This study provides new insight into changes in reproductive performance and highlights the role of non-coding mutations in generating phenotypic diversity between breeds.

scholarly journals Evolution of mouse circadian enhancers from transposable elements

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Julius Judd ◽  
Hayley Sanderson ◽  
Cédric Feschotte
Keyword(s):  
Gene Expression ◽  
Transposable Elements ◽  
Binding Sites ◽  
Mouse Liver ◽  
Integration Site ◽  
Point Mutations ◽  
Regulatory Elements ◽  
Circadian Gene ◽  
Binding Motifs ◽  
Reporter Assays

Abstract Background Transposable elements are increasingly recognized as a source of cis-regulatory variation. Previous studies have revealed that transposons are often bound by transcription factors and some have been co-opted into functional enhancers regulating host gene expression. However, the process by which transposons mature into complex regulatory elements, like enhancers, remains poorly understood. To investigate this process, we examined the contribution of transposons to the cis-regulatory network controlling circadian gene expression in the mouse liver, a well-characterized network serving an important physiological function. Results ChIP-seq analyses reveal that transposons and other repeats contribute ~ 14% of the binding sites for core circadian regulators (CRs) including BMAL1, CLOCK, PER1/2, and CRY1/2, in the mouse liver. RSINE1, an abundant murine-specific SINE, is the only transposon family enriched for CR binding sites across all datasets. Sequence analyses and reporter assays reveal that the circadian regulatory activity of RSINE1 stems from the presence of imperfect CR binding motifs in the ancestral RSINE1 sequence. These motifs matured into canonical motifs through point mutations after transposition. Furthermore, maturation occurred preferentially within elements inserted in the proximity of ancestral CR binding sites. RSINE1 also acquired motifs that recruit nuclear receptors known to cooperate with CRs to regulate circadian gene expression specifically in the liver. Conclusions Our results suggest that the birth of enhancers from transposons is predicated both by the sequence of the transposon and by the cis-regulatory landscape surrounding their genomic integration site.

Associations of QTL Region Genes of Chromosome 2 with Meat Quality Traits and Productivity of the Ukrainian Large White Pig Breed

2021 ◽  
Vol 55 (1) ◽  
pp. 53-62
Author(s):  
V. N. Balatsky ◽  
Y. K. Oliinychenko ◽  
T. V. Buslyk ◽  
I. B. Bankovska ◽  
S. N. Korinnyi ◽  
...  
Keyword(s):  
Meat Quality ◽  
Quality Traits ◽  
Chromosome 2 ◽  
Large White ◽  
Meat Quality Traits ◽  
Large White Pig
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