Transcriptome profiles of hypothalamus and adrenal gland linked to haplotype related to coping behavior in pigs

Gley, Kevin; Muráni, Eduard; Trakooljul, Nares; Zebunke, Manuela; Puppe, Birger; Wimmers, Klaus; Ponsuksili, Siriluck

doi:10.1038/s41598-019-49521-2

Cited by 10 publications

(18 citation statements)

References 77 publications

(74 reference statements)

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“…Tissue samples of porcine adrenal gland, amygdala, hippocampus and hypothalamus using microarray-based mRNA expression profiling as well as sncRNA deep sequencing from our previous studies were used for downstream analyses ( Gley et al, 2019a , b ; Haack et al, 2019 ). Discovered sncRNA structures mainly consisted of miRNA, Rrna, and tRNA, with additional low abundance RNA species including yRNA, piRNA as well as snoRNA.…”

Section: Resultsmentioning

confidence: 99%

“…Previous studies focused primarily on the identification of small subsets of molecules for the explanation of phenotypes and, moreover, used univariate approaches, where each biological feature is considered independently. Based on our previous work, which showed that coping behavior was associated with a prominent QTL region on SSC12 ( Ponsuksili et al, 2015 ) and individuals of each group are characterized by specific gene expression patterns in all four tissues ( Gley et al, 2019a , b ), we hypothesize that integration of mRNA and sncRNA data measured on the same animals reveal distinct group-specific biomarker panels. We combined large-scale biological data sets including microarray mRNA as well as deep sequencing sncRNA expression data for the discovery of novel molecular insights underlying different coping behavior phenotypes, adding to the knowledge of the complex interplay between different transcriptomic layers.…”

Section: Introductionmentioning

confidence: 90%

“…The animals used in this study were selected from a bigger pool consisting of 294 German Landrace (DL) piglets, which were used in our previous GWAS ( Ponsuksili et al, 2015 ). Inclusion criteria for the present study are phenotypic extremity for early life coping behavior trait as well as the haplotypes at a coping behavior-associated QTL ( Gley et al, 2019a , b ). Using the same animals, early life coping style and haplotype-based classification allowed the selection of 20 pigs—10 high reactive (HR) animals and 10 low reactive (LR) animals.…”

Section: Methodsmentioning

confidence: 99%

“…We used microarray data from our previous studies ( Gley et al, 2019a , b ). In brief, whole porcine transcriptomes of amygdala, adrenal gland, hippocampus and hypothalamus were analyzed using Affymetrix snowball arrays (Affymetrix, Santa Clara, CA, United States).…”

Section: Methodsmentioning

confidence: 99%

“…In our previous studies, we analyzed differential mRNA expression between two haplotypes in a coping behavior associated QTL region in the four tissue types adrenal gland, hypothalamus, amygdala and hippocampus ( Gley et al, 2019a , b ). In a further study, we used a deep sequencing approach to explore small non-coding RNA (sncRNA) expression in central parts of the physiological stress and anxiety response system in the same animals ( Haack et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

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Multi-Transcript Level Profiling Revealed Distinct mRNA, miRNA, and tRNA-Derived Fragment Bio-Signatures for Coping Behavior Linked Haplotypes in HPA Axis and Limbic System

et al. 2021

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The molecular basis of porcine coping behavior (CB) relies on a sophisticated interplay of genetic and epigenetic features. Deep sequencing technologies allowed the identification of a plethora of new regulatory small non-coding RNA (sncRNA). We characterized mRNA and sncRNA profiles of central parts of the physiological stress response system including amygdala, hippocampus, hypothalamus and adrenal gland using systems biology for integration. Therefore, ten each of high- (HR) and low- (LR) reactive pigs (n = 20) carrying a CB associated haplotype in a prominent QTL-region on SSC12 were selected for mRNA and sncRNA expression profiling. The molecular markers related to the LR group included ATP1B2, MPDU1, miR-19b-5p, let-7g-5p, and 5′-tiRNALeu in the adrenal gland, miR-194a-5p, miR-125a-5p, miR-7-1-5p, and miR-107-5p in the hippocampus and CBL and PVRL1 in the hypothalamus. Interestingly, amygdalae of the LR group showed 5′-tiRNA and 5′-tRF (5′-tRFLys, 5′-tiRNALys, 5′-tiRNACys, and 5′-tiRNAGln) enrichment. Contrarily, molecular markers associated with the HR group encompassed miR-26b-5p, tRNAArg, tRNAGlyiF in the adrenal gland, IGF1 and APOD in the amygdala and PBX1, TOB1, and C18orf1 in the hippocampus and miR-24 in the hypothalamus. In addition, hypothalami of the HR group were characterized by 3′-tiRNA enrichment (3′-tiRNAGln, 3′-tiRNAAsn, 3′-tiRNAVal, 3′-tRFPro, 3′-tiRNACys, and 3′-tiRNAAla) and 3′-tRFs enrichment (3′-tRFAsn, 3′-tRFGlu, and 3′-tRFVal). These evidence suggest that tRNA-derived fragments and their cleavage activity are a specific marker for coping behavior. Data integration revealed new bio-signatures of important molecular interactions on a multi-transcript level in HPA axis and limbic system of pigs carrying a CB-associated haplotype.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 90%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Multi-Transcript Level Profiling Revealed Distinct mRNA, miRNA, and tRNA-Derived Fragment Bio-Signatures for Coping Behavior Linked Haplotypes in HPA Axis and Limbic System

et al. 2021

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Transcriptomic profiles of consistent risk-taking behaviour across time and contexts in European sea bass

et al. 2022

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Bolder individuals have greater access to food sources and reproductive partners but are also at increased risk of predation. Boldness is believed to be consistent across time and contexts, but few studies have investigated the stability of this trait across variable environments, such as varying stress loads or long periods of time. Moreover, the underlying molecular components of boldness are poorly studied. Here, we report that boldness of 1154 European sea bass, evaluated using group risk-taking tests, is consistent over seven months and for individuals subjected to multiple environments, including a chronically stressful environment. Differences in risk-taking behaviour were further supported by differences observed in the responses to a novel environment test: shy individuals displayed more group dispersion, more thigmotaxic behaviour and lower activity levels. Transcriptomic analyses performed on extreme phenotypes revealed that bold individuals display greater expression for genes involved in social and exploration behaviours, and memory in the pituitary, and genes involved in immunity and responses to stimuli in the head kidney. This study demonstrates that personality traits come with an underpinning molecular signature, especially in organs involved in the endocrine and immune systems. As such, our results help to depict state–behaviour feedback mechanisms, previously proposed as key in shaping animal personality.

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The pink salmon genome: uncovering the genomic consequences of a strict two-year life-cycle

Christensen

Rondeau

Sakhrani

et al. 2021

Preprint

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Pink salmon (Oncorhynchus gorbuscha) adults are the smallest of the five Pacific salmon native to the western Pacific Ocean. Pink salmon are also the most abundant of these species and account for a large proportion of the commercial value of the salmon fishery worldwide. A strict two-year life-history of most pink salmon generates temporally isolated populations that spawn either in even-years or odd-years. To uncover the influence of this genetic isolation, reference genome assemblies were generated for each year-class and whole genome re-sequencing data was collected from salmon of both year-classes. The salmon were sampled from six Canadian rivers and one Japanese river. At multiple centromeres we identified peaks of Fst between year-classes that were millions of base-pairs long. The largest Fst peak was also associated with a million base-pair chromosomal polymorphism found in the odd-year genome near a centromere. These Fst peaks may be the result of centromere drive or a combination or reduced recombination and genetic drift, and they could influence speciation. Other regions of the genome influenced by odd-year and even-year temporal isolation and tentatively under selection were mostly associated with genes related to immune function, organ development/maintenance, and behaviour.

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Transcriptome profiles of hypothalamus and adrenal gland linked to haplotype related to coping behavior in pigs

Cited by 10 publications

References 77 publications

Multi-Transcript Level Profiling Revealed Distinct mRNA, miRNA, and tRNA-Derived Fragment Bio-Signatures for Coping Behavior Linked Haplotypes in HPA Axis and Limbic System

Multi-Transcript Level Profiling Revealed Distinct mRNA, miRNA, and tRNA-Derived Fragment Bio-Signatures for Coping Behavior Linked Haplotypes in HPA Axis and Limbic System

Transcriptomic profiles of consistent risk-taking behaviour across time and contexts in European sea bass

The pink salmon genome: uncovering the genomic consequences of a strict two-year life-cycle

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