Mapping quantitative trait loci in Gallus gallus using principal components

Pinto, L. F. B.; Packer, Irineu Umberto; Ledur, Mônica Corrêa; Moura, Ana Silvia Alves Meira Tavares; Nones, Kátia; Coutinho, Luiz Lehmann

doi:10.1590/s1516-35982010001100016

Cited by 5 publications

(6 citation statements)

References 19 publications

(22 reference statements)

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“…This result was consistent with those of previous QTL studies [13-18,34] that were focused on FCR and that detected more QTL for components of the FCR, such as feed intake, growth and body composition than for FCR itself, i.e. nine QTL were found for feed conversion ratio but 16 for production traits such as growth or egg production and 13 for body composition.…”

Section: Discussionsupporting

confidence: 92%

“…Since the digestive efficiency of the whole diet depends on the digestive efficiency of each of its nutrients, QTL that control digestive efficiency were found mainly for components of AMEn (mainly CDUS) and not for AMEn itself, in spite of significant and highly positive genetic correlations (0.60 to 0.90). This result was consistent with those of previous QTL studies [ 13 - 18 , 34 ] that were focused on FCR and that detected more QTL for components of the FCR, such as feed intake, growth and body composition than for FCR itself, i.e. nine QTL were found for feed conversion ratio but 16 for production traits such as growth or egg production and 13 for body composition.…”

Section: Discussionsupporting

confidence: 92%

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Detection of QTL controlling digestive efficiency and anatomy of the digestive tract in chicken fed a wheat-based diet

et al. 2014

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BackgroundImproving digestive efficiency is a major goal in poultry production, to reduce production costs, make possible the use of alternative feedstuffs and decrease the volume of manure produced. Since measuring digestive efficiency is difficult, identifying molecular markers associated with genes controlling this trait would be a valuable tool for selection. Detection of QTL (quantitative trait loci) was undertaken on 820 meat-type chickens in a F2 cross between D- and D+ lines divergently selected on low or high AMEn (apparent metabolizable energy value of diet corrected to 0 nitrogen balance) measured at three weeks in animals fed a low-quality diet. Birds were measured for 13 traits characterizing digestive efficiency (AMEn, coefficients of digestive utilization of starch, lipids, proteins and dry matter (CDUS, CDUL, CDUP, CDUDM)), anatomy of the digestive tract (relative weights of the proventriculus, gizzard and intestine and proventriculus plus gizzard (RPW, RGW, RIW, RPGW), relative length and density of the intestine (RIL, ID), ratio of proventriculus and gizzard to intestine weight (PG/I); and body weight at 23 days of age. Animals were genotyped for 6000 SNPs (single nucleotide polymorphisms) distributed on 28 autosomes, the Z chromosome and one unassigned linkage group.ResultsNine QTL for digestive efficiency traits, 11 QTL for anatomy-related traits and two QTL for body weight at 23 days of age were detected. On chromosome 20, two significant QTL at the genome level co-localized for CDUS and CDUDM, i.e. two traits that are highly correlated genetically. Moreover, on chromosome 16, chromosome-wide QTL for AMEn, CDUS, CDUDM and CDUP, on chromosomes 23 and 26, chromosome-wide QTL for CDUS, on chromosomes 16 and 26, co-localized QTL for digestive efficiency and the ratio of intestine length to body weight and on chromosome 27 a chromosome-wide QTL for CDUDM were identified.ConclusionsThis study identified several regions of the chicken genome involved in the control of digestive efficiency. Further studies are necessary to identify the underlying genes and to validate these in commercial populations and breeding environments.

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Section: Discussionsupporting

confidence: 92%

Section: Discussionsupporting

confidence: 92%

Detection of QTL controlling digestive efficiency and anatomy of the digestive tract in chicken fed a wheat-based diet

et al. 2014

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“…Fat production in poultry is a high-inheritance polygenic trait regulated by various behavioral, environmental, and hormonal factors (Le Mignon et al, 2009). Many studies have identified genes related to storage lipids in broilers (Lagarrigue et al, 2006;Pinto et al, 2010;Nones et al, 2012). On the other hand, the integration of high-throughput genomic DNA and RNA sequencing leads to the identification of genomic regions that control traits at the whole genome scale (Cesar et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Omics Multi-Layers Networks Provide Novel Mechanistic and Functional Insights Into Fat Storage and Lipid Metabolism in Poultry

et al. 2021

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Fatty acid metabolism in poultry has a major impact on production and disease resistance traits. According to the high rate of interactions between lipid metabolism and its regulating properties, a holistic approach is necessary. To study omics multilayers of adipose tissue and identification of genes and miRNAs involved in fat metabolism, storage and endocrine signaling pathways in two groups of broiler chickens with high and low abdominal fat, as well as high-throughput techniques, were used. The gene–miRNA interacting bipartite and metabolic-signaling networks were reconstructed using their interactions. In the analysis of microarray and RNA-Seq data, 1,835 genes were detected by comparing the identified genes with significant expression differences (p.adjust < 0.01, fold change ≥ 2 and ≤ −2). Then, by comparing between different data sets, 34 genes and 19 miRNAs were detected as common and main nodes. A literature mining approach was used, and seven genes were identified and added to the common gene set. Module finding revealed three important and functional modules, which were involved in the peroxisome proliferator-activated receptor (PPAR) signaling pathway, biosynthesis of unsaturated fatty acids, Alzheimer’s disease metabolic pathway, adipocytokine, insulin, PI3K–Akt, mTOR, and AMPK signaling pathway. This approach revealed a new insight to better understand the biological processes associated with adipose tissue.

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“…Many studies have been reported identi ed genes related to storage lipids in broilers [4,5,6]. On the other hand, the integration of high-throughput genomic DNA and RNA sequencing leads to identify genomic regions that control traits at the whole genome scale [7].…”

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confidence: 99%

Omics multi-layers networks and identification of genes involved in fat storage and metabolism in poultry using interactomics approach

Bahrami¹,

Ghafouri²,

Sadeghi³

et al. 2020

Preprint

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Background Fatty acid metabolism in animals has a major impact on production and disease resistance traits. According to the high rate of interactions between lipid metabolism and its regulating properties, a holistic approach is necessary. Methods To study multi-omics layers of adipose tissue and identification of genes involved in fat metabolism, storage and endocrine signaling pathways in two groups of broiler chickens with high and low abdominal fat, high-throughput screening (HTS) techniques were used. The Gene-miRNA interacting bipartite and metabolic-signaling networks were reconstructed using their interactions. Results In the analysis of microarray and RNA-Seq data, 1835 genes were detected by comparing the identified genes with significant expression differences. Then, by comparing, 34 genes and 19 miRNAs were detected as common and main nodes. The literature mining approach was used and 7 genes were identified and added to the common gene set. Module finding revealed three important and functional modules. The detected modules 1, 2, and 3 were involved in the PPAR signaling pathway, biosynthesis of unsaturated fatty acids, and Alzheimer's disease metabolic pathway, adipocytokine, insulin, PI3K-Akt, mTOR and AMPK signaling pathway. Conclusions This approach revealed a new insight for a better understanding of the biological processes associated with adipose tissue.

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Mapping quantitative trait loci in Gallus gallus using principal components

Cited by 5 publications

References 19 publications

Detection of QTL controlling digestive efficiency and anatomy of the digestive tract in chicken fed a wheat-based diet

Detection of QTL controlling digestive efficiency and anatomy of the digestive tract in chicken fed a wheat-based diet

Omics Multi-Layers Networks Provide Novel Mechanistic and Functional Insights Into Fat Storage and Lipid Metabolism in Poultry

Omics multi-layers networks and identification of genes involved in fat storage and metabolism in poultry using interactomics approach

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