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Genomic regions and signaling pathways associated with indicator traits for feed efficiency in juvenile Atlantic salmon (Salmo salar)
Genetics Selection Evolution ( IF 4.1 ) Pub Date : 2020-11-06 , DOI: 10.1186/s12711-020-00587-x
Hanne Dvergedal , Thomas Nelson Harvey , Yang Jin , Jørgen Ødegård , Lars Grønvold , Simen Rød Sandve , Dag Inge Våge , Thomas Moen , Gunnar Klemetsdal

One objective of this study was to identify putative quantitative trait loci (QTL) that affect indicator phenotypes for growth, nitrogen, and carbon metabolism in muscle, liver, and adipose tissue, and for feed efficiency. Another objective was to perform an RNAseq analysis (184 fish from all families), to identify genes that are associated with carbon and nitrogen metabolism in the liver. The material consisted of a family experiment that was performed in freshwater and included 2281 individuals from 23 full-sib families. During the 12-day feed conversion test, families were randomly allocated to family tanks (50 fish per tank and 2 tanks per family) and fed a fishmeal-based diet labeled with the stable isotopes 15N and 13C at inclusion levels of 2 and 1%, respectively. Using a linear mixed-model algorithm, a QTL for pre-smolt growth was identified on chromosome 9 and a QTL for carbon metabolism in the liver was identified on chromosome 12 that was closely related to feed conversion ratio on a tank level. For the indicators of feed efficiency traits that were derived from the stable isotope ratios (15N and 13C) of muscle tissue and growth, no convincing QTL was detected, which suggests that these traits are polygenic. The transcriptomic analysis showed that high carbon and nitrogen metabolism was associated with individuals that convert protein from the feed more efficiently, primarily due to higher expression of the proteasome, lipid, and carbon metabolic pathways in liver. In addition, we identified seven transcription factors that were associated with carbon and nitrogen metabolism and located in the identified QTL regions. Analyses revealed one QTL associated with pre-smolt growth and one QTL for carbon metabolism in the liver. Both of these traits are associated with feed efficiency. However, more accurate mapping of the putative QTL will require a more diverse family material. In this experiment, fish that have a high carbon and nitrogen metabolism in the liver converted protein from the feed more efficiently, potentially because of a higher expression of the proteasome, lipid, and carbon metabolic pathways in liver. Within the QTL regions, we detected seven transcription factors that were associated with carbon and nitrogen metabolism.

中文翻译:

与幼大西洋大西洋鲑(Salmo salar)饲料效率指标性状相关的基因组区域和信号通路

这项研究的目的之一是确定可能影响肌肉,肝脏和脂肪组织中生长,氮和碳代谢指标表型的定量数量性状位点(QTL),以及饲料效率。另一个目标是进行RNAseq分析(来自所有科目的184条鱼),以鉴定与肝脏中碳和氮代谢相关的基因。该材料由在淡水中进行的家庭实验组成,包括来自23个同胞家庭的2281个个体。在为期12天的饲料转换测试中,将家庭随机分配到家庭水箱中(每个水箱50条鱼,每个家庭2条水箱),并喂食标有稳定同位素15N和13C的鱼粉基饲料,其夹杂物含量为2%和1% , 分别。使用线性混合模型算法 在第9号染色体上鉴定出了前蜕皮生长的QTL,在第12号染色体上鉴定出了肝脏中碳代谢的QTL,这与罐级饲料转化率密切相关。对于源自肌肉组织和生长的稳定同位素比(15N和13C)的饲料效率性状指标,未检测到令人信服的QTL,这表明这些性状是多基因的。转录组分析表明,高碳和氮代谢与个体更有效地从饲料中转化蛋白质的个体有关,这主要归因于蛋白酶体,脂质和碳代谢途径在肝脏中的更高表达。此外,我们确定了七个与碳和氮代谢相关的转录因子,并位于确定的QTL区域。分析表明,有一个与蜕皮前生长有关的QTL和一个与肝脏中碳代谢有关的QTL。这两个特征都与饲料效率有关。但是,对假定的QTL进行更精确的映射将需要更多的家族材料。在该实验中,肝脏中具有高碳和氮代谢的鱼类更有效地将饲料中的蛋白质转化为蛋白质,这可能是因为蛋白酶体,脂质和碳代谢途径在肝脏中的表达更高。在QTL区域内,我们检测到了与碳和氮代谢相关的七个转录因子。推定的QTL的更精确映射将需要更多的家族材料。在该实验中,肝脏中具有高碳和氮代谢的鱼类更有效地从饲料中转化了蛋白质,这可能是因为蛋白酶体,脂质和碳代谢途径在肝脏中的表达更高。在QTL区域内,我们检测到了与碳和氮代谢相关的七个转录因子。推定的QTL的更精确映射将需要更多的家族材料。在该实验中,肝脏中具有高碳和氮代谢的鱼类更有效地从饲料中转化了蛋白质,这可能是因为蛋白酶体,脂质和碳代谢途径在肝脏中的表达更高。在QTL区域内,我们检测到了与碳和氮代谢相关的七个转录因子。
更新日期:2020-11-06
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