Identification of candidate genes and regulatory factors related to growth rate through hypothalamus transcriptome analyses in broiler chickens

Piórkowska, Katarzyna; Żukowski, Kacper; Połtowicz, Katarzyna; Nowak, Joanna; Ropka‐Molik, Katarzyna; Derebecka, Natalia; Wesoły, Joanna; Wojtysiak, Dorota

doi:10.1186/s12864-020-06884-5

Cited by 19 publications

(11 citation statements)

References 49 publications

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“…CD36 is a candidate gene for pendulous comb [ 116 ] and related to adipogenesis and lipogenesis in pectoralis muscle tissue [ 117 ]. In the meat-type breed, signals of selective sweeps overlapped with OVST (ovostatin) [ 118 ], PMCH (promelanin concentrating hormone) [ 37 , 119 ], and SLC2A14 (solute carrier family 2 member 14) [ 120 ]. The OVST gene is involved in oviduct development and eggshell formation [ 118 ].…”

Section: Discussionmentioning

confidence: 99%

“…The OVST gene is involved in oviduct development and eggshell formation [ 118 ]. PMCH is a candidate gene involved in chicken growth control and overexpressed in low growth rate broiler cockerels [ 119 ] that also contributes to appetite and food intake [ 37 , 118 ]. SLC2A14 is supposedly a candidate gene for pigment synthesis [ 120 ].…”

Section: Discussionmentioning

confidence: 99%

“…Among other genes in RW-specific regions under putative selection on GGA4, there was a trio of the linked fibrinogen alpha, beta, and gamma chain genes ( FGA , FGB , FGG ) that are involved in cell differentiation and had signals of selective sweeps [ 106 ]. FGA is also related to response to Marek’s disease [ 122 ], while FGB is a candidate gene overexpressed in low growth rate broiler cockerels [ 119 ]. Two more closely located genes, PLRG1 (pleiotropic regulator 1) and SFRP2 (secreted frizzled related protein 2), also overlap with signals of selective sweeps and contribute to cell differentiation.…”

Section: Discussionmentioning

confidence: 99%

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Unveiling Comparative Genomic Trajectories of Selection and Key Candidate Genes in Egg-Type Russian White and Meat-Type White Cornish Chickens

Abdelmanova

Dotsev

Romanov

et al. 2021

Biology

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Comparison of genomic footprints in chicken breeds with different selection history is a powerful tool in elucidating genomic regions that have been targeted by recent and more ancient selection. In the present work, we aimed at examining and comparing the trajectories of artificial selection in the genomes of the native egg-type Russian White (RW) and meat-type White Cornish (WC) breeds. Combining three different statistics (top 0.1% SNP by FST value at pairwise breed comparison, hapFLK analysis, and identification of ROH island shared by more than 50% of individuals), we detected 45 genomic regions under putative selection including 11 selective sweep regions, which were detected by at least two different methods. Four of such regions were breed-specific for each of RW breed (on GGA1, GGA5, GGA8, and GGA9) and WC breed (on GGA1, GGA5, GGA8, and GGA28), while three remaining regions on GGA2 (two sweeps) and GGA3 were common for both breeds. Most of identified genomic regions overlapped with known QTLs and/or candidate genes including those for body temperatures, egg productivity, and feed intake in RW chickens and those for growth, meat and carcass traits, and feed efficiency in WC chickens. These findings were concordant with the breed origin and history of their artificial selection. We determined a set of 188 prioritized candidate genes retrieved from the 11 overlapped regions of putative selection and reviewed their functions relative to phenotypic traits of interest in the two breeds. One of the RW-specific sweep regions harbored the known domestication gene, TSHR. Gene ontology and functional annotation analysis provided additional insight into a functional coherence of genes in the sweep regions. We also showed a greater candidate gene richness on microchromosomes relative to macrochromosomes in these genomic areas. Our results on the selection history of RW and WC chickens and their key candidate genes under selection serve as a profound information for further conservation of their genomic diversity and efficient breeding.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Unveiling Comparative Genomic Trajectories of Selection and Key Candidate Genes in Egg-Type Russian White and Meat-Type White Cornish Chickens

Abdelmanova

Dotsev

Romanov

et al. 2021

Biology

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“…DKK3 is known to suppress tumor growth by inhibiting cancer cell proliferation in human [ 173 , 174 , 175 ]. In another study, POMC , NMU , NPW , PMCH , GAL , and FOS were determined to be related to the broiler growth rate, as variable growth was attributed to their differential expression in the hypothalamus [ 176 ]. In a comprehensive study of DEGs that included principal component analysis, Nihashi et al [ 177 ] identified 13 candidate genes potentially related to myoblast proliferation and differentiation in chickens ( CDKN2B , ACTC1 , MYH15 , TNNI1 , TNNI2 , TNNT2 , CCK , CXCL14 , MDK , PENK , CSRP2 , MFAP5 , and UCHL1 ).…”

Section: Candidate Genes Affecting Muscle Development In Chickensmentioning

confidence: 99%

Key Genes Regulating Skeletal Muscle Development and Growth in Farm Animals

Mohammadabadi

Bordbar

Jensen

et al. 2021

Animals

129

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Farm-animal species play crucial roles in satisfying demands for meat on a global scale, and they are genetically being developed to enhance the efficiency of meat production. In particular, one of the important breeders’ aims is to increase skeletal muscle growth in farm animals. The enhancement of muscle development and growth is crucial to meet consumers’ demands regarding meat quality. Fetal skeletal muscle development involves myogenesis (with myoblast proliferation, differentiation, and fusion), fibrogenesis, and adipogenesis. Typically, myogenesis is regulated by a convoluted network of intrinsic and extrinsic factors monitored by myogenic regulatory factor genes in two or three phases, as well as genes that code for kinases. Marker-assisted selection relies on candidate genes related positively or negatively to muscle development and can be a strong supplement to classical selection strategies in farm animals. This comprehensive review covers important (candidate) genes that regulate muscle development and growth in farm animals (cattle, sheep, chicken, and pig). The identification of these genes is an important step toward the goal of increasing meat yields and improves meat quality.

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“…The hypothalamus was an important nerve center that regulates the body and endocrine activities, as well as an important center of neuroendocrine. It can regulate the secretion of hormones in the pituitary gland and the activities of its target glands, including reproduction and growth (31). Here, we initially identified 1,836 DEGs and 28 DEMs from FP-HY vs. FP-LY comparison in the hypothalamus by RNAseq.…”

Section: Discussionmentioning

confidence: 99%

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Identification of candidate genes and regulatory factors related to growth rate through hypothalamus transcriptome analyses in broiler chickens

Cited by 19 publications

References 49 publications

Unveiling Comparative Genomic Trajectories of Selection and Key Candidate Genes in Egg-Type Russian White and Meat-Type White Cornish Chickens

Unveiling Comparative Genomic Trajectories of Selection and Key Candidate Genes in Egg-Type Russian White and Meat-Type White Cornish Chickens

Key Genes Regulating Skeletal Muscle Development and Growth in Farm Animals

Table_12.XLSX

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