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

Thanh-Son, Tran; Narcy, Agnès; Carré, Bernard; Gabriel, Irène; Rideau, Nicole; Gilbert, Hélène; Demeure, Olivier; Bed’Hom, Bertrand; Chantry-Darmon, Céline; Boscher, M. Y.; Bastianelli, Denis; Sellier, Nadine; Chabault, Marie; Calenge, Fanny; Bihan-Duval, Élisabeth Le; Beaumont, Catherine; Mignon-Grasteau, Sandrine

doi:10.1186/1297-9686-46-25

Cited by 16 publications

(33 citation statements)

References 31 publications

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“…The results of genetic estimation showed that JL and IL have high heritability, while DL has moderate heritability. These results were similar to those of a previous study in which the heritability of the relative intestine length in chicken fed a wheat-based diet was moderate (h 2 ¼ 0.37) (Tran et al 2014). Among the three traits, the genetic correlations were high, but the phenotypic correlations were not, indicating that these traits were greatly influenced by environmental factors.…”

Section: Estimation Of Contribution To Phenotypic Variation (Cpv)supporting

confidence: 89%

Genome-wide association studies for small intestine length in an F₂population of chickens

ShangMin

Wang

et al. 2017

Italian Journal of Animal Science

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Small intestine length is an important physiological index that is effected by nutrient intake and thus plays roles in growth and egg-laying in chickens. Although there are some studies about small intestine length, little information is available regarding the genetic architecture of small intestine. The current study was conducted to investigate the genetic architecture of small intestine length. A total of 1435 F 2 hens from a White Leghorn and Dongxiang reciprocal cross were phenotyped for the duodenum lengths (DL), jejunum length (JL) and ileum length (IL), and genotyped using a chicken 600 K single nucleotide polymorphism (SNP) genotyping array. SNP-based heritability estimation was performed by SAS algorithm and univariate genome-wide association studies (GWAS) were performed by GEMMA, a genome-wide efficient mixed-model association algorithm. The JL and IL exhibited high SNP-based heritability estimation (0.43 and 0.49, respectively), while the heritability estimation was moderate for the DL (0.36). Three independent univariate genome-wide screens for these small intestine lengths identified 202, 298 and 119 SNPs that were significantly associated with the DL, JL and IL, respectively. The significant genomic regions indicated that $170 Mb on GGA1 is an important region for these small intestine lengths. In this region, 78 SNPs were associated with them, of which 4 were involved in cell proliferation and development, corresponding to RB1 (rs313207223), CKAP2 (rs312737959) and SIAH3 (rs312771221, rs15494052) genes. Small intestine length exhibited good SNP-based heritability estimation and the GWAS results indicated that an important genomic region was located on GGA1.ARTICLE HISTORY

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Section: Estimation Of Contribution To Phenotypic Variation (Cpv)supporting

confidence: 89%

Genome-wide association studies for small intestine length in an F₂population of chickens

ShangMin

Wang

et al. 2017

Italian Journal of Animal Science

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“…Finally, genomic tools could be useful as was previously highlighted that some genomic regions were linked with FE characteristics in livestock species (Chen et al 2011;Wolc et al 2013;Al-Husseini et al 2014;Tran et al 2014). However, nothing has been reported to date on fish to our knowledge.…”

Section: Neuropeptides and Hormonesmentioning

confidence: 91%

Improving feed efficiency in fish using selective breeding: a review

Verdal

Komen

Quillet

et al. 2017

Reviews in Aquaculture

130

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Improving feed efficiency (FE) is key to reducing production costs in aquaculture and to achieving sustainability for the aquaculture industry. Feed costs account for 30–70% of total production costs in aquaculture; much work has been done on nutritional and husbandry approaches to improve FE but only a limited amount of research has been devoted to using genetics, despite its potential. This paper reviews past work to improve FE in fish using selective breeding and assess future directions. Direct selection on FE traits requires methods to measure individual feed consumption and estimate FE efficiently and accurately. This is particularly difficult to do in fish because of the environment in which they live. Many of the published studies on FE were found to be inaccurate because of methodological problems. The relatively low heritability estimates of FE traits in fish published to date are probably partly as a result of inaccurate measurements of feed intake. Improving ways to measure the individual feed intake with high accuracy will be critical to the successful application of genetics to improving FE. Indirect selection criteria that could be used to improve FE (including growth after starvation/refeeding, body composition, neuropeptides or hormone levels) are discussed. Promising approaches to measuring feed intake accurately that may enable these studies to be undertaken are identified. More work using these will be needed prior to assessing the practicality of the introduction of direct or indirect traits for FE in fish genetic improvement programmes.

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“…The divergent selection experiment started from a pure male line from the SASSO breeding company, used as the father of the medium-growth crossbred commercial chickens. The F2 population, created to detect the QTLs for digestive efficiency, has been described in Tran et al [ 17 ]. Before crossing, the D+ and D- populations presented wide differences in feed and digestive efficiency (30 to 40%) [ 18 , 19 ].…”

Section: Methodsmentioning

confidence: 99%

Impact of Selection for Digestive Efficiency on Microbiota Composition in the Chicken

et al. 2015

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ObjectivesFeed efficiency and its digestive component, digestive efficiency, are key factors in the environmental impact and economic output of poultry production. The interaction between the host and intestinal microbiota has a crucial role in the determination of the ability of the bird to digest its food and to the birds’ feed efficiency. We therefore investigated the phenotypic and genetic relationships between birds’ efficiency and the composition of the cecal microbiota in a F2 cross between broiler lines divergently selected for their high or low digestive efficiency.MethodsAnalyses were performed on 144 birds with extreme feed efficiency values at 3 weeks, with feed conversion values of 1.41±0.05 and 2.02±0.04 in the efficient and non-efficient groups, respectively. The total numbers of Lactobacillus, L. salivarius, L. crispatus, C. coccoides, C. leptum and E. coli per gram of cecal content were measured.ResultsThe two groups mainly differed in larger counts of Lactobacillus, L. salivarius and E. coli in less efficient birds. The equilibrium between bacterial groups was also affected, efficient birds showing higher C. leptum, C. coccoides and L. salivarius to E. coli ratios. The heritability of the composition of microbiota was also estimated and L. crispatus, C. leptum, and C. coccoides to E. coli ratios were moderately but significantly heritable (0.16 to 0.24). The coefficient of fecal digestive use of dry matter was genetically and positively correlated with L. crispatus, C. leptum, C. coccoides (0.50 to 0.76) and negatively with E. coli (-0.66). Lipid digestibility was negatively correlated with E. coli (-0.64), and AMEn positively correlated with C. coccoides and with the C. coccoides to Lactobacillus ratio (0.48 to 0.64). We also detected 14 Quantitative Trait Loci (QTL) for microbiota on the host genome, mostly on C. leptum and Lactobacillus. The QTL for C. leptum on GGA6 was close to genome-wide significance. This region mainly includes genes involved in anti-inflammatory responses and in the motility of the gastrointestinal tract.

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

Cited by 16 publications

References 31 publications

Genome-wide association studies for small intestine length in an F₂population of chickens

Genome-wide association studies for small intestine length in an F₂population of chickens

Improving feed efficiency in fish using selective breeding: a review

Impact of Selection for Digestive Efficiency on Microbiota Composition in the Chicken

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

Cited by 16 publications

References 31 publications

Genome-wide association studies for small intestine length in an F2population of chickens

Genome-wide association studies for small intestine length in an F2population of chickens

Improving feed efficiency in fish using selective breeding: a review

Impact of Selection for Digestive Efficiency on Microbiota Composition in the Chicken

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Genome-wide association studies for small intestine length in an F₂population of chickens

Genome-wide association studies for small intestine length in an F₂population of chickens