Transcriptome signature of liver tissue with divergent mutton odour and flavour using RNA deep sequencing

Gunawan, Asep; Jakaria, Md.; Listyarini, Kasita; Furqon, Ahmad; Sumantri, Cece; Akter, Syeda Hasina; Uddin, Muhammad Jasim

doi:10.1016/j.gene.2018.06.086

Cited by 28 publications

(19 citation statements)

References 43 publications

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“…Akan tetapi, kontribusi daging domba dalam pemenuhan kebutuhan daging nasional masih rendah dibanding lainnya, yaitu sebesar 2% dibanding daging sapi sebesar 16% (DPKH 2017). Faktor-faktor yang diduga menjadi penyebab rendahnya konsumsi daging domba secara Nasional diantaranya adanya persepsi di masyarakat bahwa daging domba memiiki tingkat off flavour dan odor tinggi atau bau daging yang kurang diminati dan sulit untuk dihilangkan (Gunawan et al, 2019;Gunawan et al, 2018a;Listyarini et al, 2018), mengandung kolesterol dan kandungan asam lemak jenuh tinggi (Gunawan et al, 2019 b ; Gunawan et al, 2018 c ;Hidayati 2015).…”

Section: Pendahuluanunclassified

Identifikasi Keragaman Gen DGAT1 serta Asosiasinya terhadap Karakteristik Karkas dan Sifat Perlemakan Domba

Gunawan¹,

Harahap²,

Listyarini³

et al. 2019

jitro

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ABSTRAK Karakteristik karkas dan sifat perlemakan pada daging domba dikontrol oleh banyak gen salah satunya gen DGAT1 (Diacylglycerol Acyltransferasel 1). Penelitian ini bertujuan mengidentifikasi SNP (Single Nucleotide Polymorphism) gen DGAT1 pada titik mutasi g.8539 C>T dan asosiasinya terhadap karakteristik karkas dan sifat perlemakan pada domba Indonesia. Total sampel domba yang digunakan sebanyak 150 buah terdiri dari 35 sampel domba compass agrinak (DCA), 36 sampel domba barbados cross (DBC), 41 sampel domba komposit garut (DKG), 20 sampel domba ekor gemuk (DEG), dan 18 sampel domba ekor tipis (DET). Karakteristik karkas dan sifat perlemakan diukur dari domba jantan berumur 10-12 bulan. Identifikasi keragaman DGAT1|ALuI dianalisis dengan metode PCR-RFLP (Polymerase Chain Reaction-Restriction Fragment Length Polymorphism). Hasil keragaman gen DGAT1 bersifat polimorfik dalam DET dan DEG, sedangkan DCA, DBC, dan DKG bersifat monomorfik. Dua genotipe disebut CC dan CT ditemukan dalam DET dan DEG. Titik mutasi gen DGAT1 berasosiasi (P<0.05) dengan karakteristik karkas, yaitu bobot dan panjang karkas. Selain itu, keragaman gen DGAT1 juga berasosiasi signifikan (P<0.05) dengan asam lemak jenuh, yaitu asam stearat (C18:0) dan asam arakidat (C20:0) dan asam lemak tak jenuh tunggal, yaitu asam oleat (C18:1n9c). Gen DGAT1 memiliki kontribusi dalam karakteristik karkas dan komposisi asam lemak pada domba.Kata Kunci: domba, gen DGAT1, karakteristik karkas, PCR-RFLP, sifat perlemakan ABSTRACT Characteristic of carcass and fatness traits of sheep is regulated by many genes such as DGAT1 (Diacylglycerol Acyltransferasel 1) gene. The research was aimed to investigate SNP (Single Nucleotide Polymorphism) of DGAT1 and its association with characteristic of carcass and fatness traits in Indonesian sheep. A total sample of sheeps used 150 rams of 10–12 months consisted 35 samples of compas agrinak sheep (CAS), 36 of barbados cross (BCS), 41 of garut composite (GCS), 20 of javanese fat tailed (JFT), and 18 of javanese thin tailed (JTT). Identification variant of DGAT1|ALuI were performed by PCR-RFLP (Polymerase Chain Reaction-Restriction Fragment Length Polymorphism). The results of polymorphism of DGAT1 were found in JTT and JFT. However, SNP of DGAT1 in CAS, BCS and GCS were monomorfic. Two genotype namely CC and CT were found in JTT and JFT populations. A SNP of the DGAT1 was associated (P<0.05) with characteristic of carcass, including weight and length of carcass. The variant of DGAT1 was associated too with saturated fatty acids (SFA) including stearic acid (C18:0) and arachidic acid (C20:0), and mono unsaturated fatty acid (MUFA) including oleic acid (C18:1n9c). The DGAT1 gene was contribute to characteristic carcass and fatty acid composition in sheep.Keywords: DGAT1 gene, characteristic carcass, fatness traits, PCR-RFLP, sheep

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Section: Pendahuluanunclassified

Identifikasi Keragaman Gen DGAT1 serta Asosiasinya terhadap Karakteristik Karkas dan Sifat Perlemakan Domba

Gunawan¹,

Harahap²,

Listyarini³

et al. 2019

jitro

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“…Then, the collected tissue was extracted according to Sambrook & Russel (2001) protocols. The SNP of APOA5 used in this study were based on a RNA sequencing study (Gunawan et al, 2018). The prepared libraries were sequenced in an Illumina HiSeq 2500 as single-reads to 100 bp using 1 lane per sample on the same flow-cell (first sequencing run) at Macrogen Inc, South Korea.…”

Section: Dna Extraction and Pcr-rflp Amplificationmentioning

confidence: 99%

Identification of Single Nucleotide Polymorphism and Pathway Analysis of Apolipoprotein A5 (APOA5) Related to Fatty Acid Traits in Indonesian Sheep

Gunawan

Anggrela

Listyarini

et al. 2018

Trop. Anim. Sci. J.

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This study was aimed to identify single nucleotide polymorphism (SNP) and pathway analysis of APOA5 with fatty acids traits in sheep. A total of 47 rams consisted of 20 heads of Javanese Fat Tailed (JFT), 17 heads of Javanese Thin Tailed (JTT), and 10 heads of Garut Composite Sheep (GCS) were used in this study. Fatty acids traits were measured at the age of 12 months with the average body weight of 25-30 kg. Identification of polymorphism of APOA5 (g.26929941 C>T) gene were analyzed using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP). The pathway analysis of APOA5 gene was performed using Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. The SNP of APOA5 gene were found polymorphic with three genotypes (CC, CT, and TT). The gene frequency of CC, CT, and TT were 0.83, 0.11, and 0.06, respectively. The chi square test revealed that the locus of APOA5 (g.26929941 C>T) was in Hardy-Weinberg equilibrium, except in thin tailed sheep. The chi-square values of JFT, JTT, and GCS were 0.05, 0.03, and 0.04, respectively. A SNP of APOA5 was associated (P<0.05) with polyunsaturated fatty acids including eicosapentanoic acid (C20:5n3) and docosahexanoic (C22:6n3) and saturated fatty acid lauric acid (C12:0) in combined population (JFT, JTT, and GCS). Furthermore, pathway analysis showed that APOA5 belonged to phagosome and peroxisome proliferator-activated receptors (PPAR) signaling pathway. In conclusion, this analysis has identified APOA5 and related pathway crucial for fatty acid composition and metabolism in sheep, as well as this gene provide molecular marker to select sheepmeat with high unsaturated fatty acid.

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“…The SNP of LEPR used in this study were based on RNA sequencing study (Gunawan et al, 2018). Using RNA deep sequencing analysis, our group describing several single nucleotide polymorphisms (SNPs) have been described recently by our group by comparing loin muscles unsaturated fatty acids contents.…”

Section: Snp Discovery Of Lepr Genementioning

confidence: 99%

“…As part of the search for genetic contributors to fat quality and sheepmeat odour and flavour, whole genome approaches using RNA sequencing had revealed leptin receptor (LEPR) as a gene with differential expression in sheeps divergent for fatness traits (Gunawan et al, 2018). Leptin receptors (LEPR) were expressed in the olfactory mucosa and upregulated by fasting (Baly et al, 2007).…”

Section: Introductionmentioning

confidence: 99%

Novel variant in the leptin receptor (LEPR) gene and its association with fat quality, odour and flavour in sheep

Gunawan

Pramukti

Listyarini

et al. 2019

J. Indonesian Trop. Anim. Agric.

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The aim of this study was to investigate the association and expression of LEPR with fat quality, flavour and odour in sheep. A total of 47 rams were used in this study. Fatty acids composition, BCFA (Branch Chanin Fatty Acids; MNA, MP, MOA, and EOA) and skatole (MI) representing fat quality, flavour and odour in sheep were measured at ages of 10-12 months old. Identification of novel variant and expression analysis of LEPR gene with different fat quality, odour and flavour were performed by PCR RFLP and qRT-PCR, respectively. A SNP in genomic region g.40854778 A>C of the LEPR gene was associated (P<0.05) with fat quality of saturated fatty acids (SFA) including [tricosanoic acid (C23:0) and tetracosanoic acid (C24:0)] and poly unsaturated fatty acid (PUFA) [docosahexaenoic acid (C22:6n3)]. However, the novel variant of LEPR was not significantly associated (P<0.05) with fat content, odour and flavour (MNA, MP, MOA, EOA, and MI). The mRNA expression analysis showed that LEPR mRNA expression was higher (P<0.01) in sheep found at the AA genotype. It could be concluded that variant SNP in the LEPR may contribute to fatty acid composition without influencing odour and flavour traits in sheep.

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Transcriptome signature of liver tissue with divergent mutton odour and flavour using RNA deep sequencing

Cited by 28 publications

References 43 publications

Identifikasi Keragaman Gen DGAT1 serta Asosiasinya terhadap Karakteristik Karkas dan Sifat Perlemakan Domba

Identifikasi Keragaman Gen DGAT1 serta Asosiasinya terhadap Karakteristik Karkas dan Sifat Perlemakan Domba

Identification of Single Nucleotide Polymorphism and Pathway Analysis of Apolipoprotein A5 (APOA5) Related to Fatty Acid Traits in Indonesian Sheep

Novel variant in the leptin receptor (LEPR) gene and its association with fat quality, odour and flavour in sheep

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