• Nutrition Research and Practice
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• 제17권4호
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• pp.682-697
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• 2023

BACKGROUND/OBJECTIVES: Tibetan tea is a kind of dark tea, due to the inherent complexity of natural products, the chemical composition and beneficial effects of Tibetan tea are not fully understood. The objective of this study was to unravel the composition of Tibetan tea using knowledge-guided multilayer network (KGMN) techniques and explore its potential antioxidant and hypolipidemic mechanisms in mice. MATERIALS/METHODS: The C57BL/6J mice were continuously gavaged with Tibetan tea extract (T group), green tea extract (G group) and ddH2O (H group) for 15 days. The activity of total antioxidant capacity (T-AOC) and superoxide dismutase (SOD) in mice was detected. Transcriptome sequencing technology was used to investigate the molecular mechanisms underlying the antioxidant and lipid-lowering effects of Tibetan tea in mice. Furthermore, the expression levels of liver antioxidant and lipid metabolism related genes in various groups were detected by the real-time quantitative polymerase chain reaction (qPCR) method. RESULTS: The results showed that a total of 42 flavonoids are provisionally annotated in Tibetan tea using KGMN strategies. Tibetan tea significantly reduced body weight gain and increased T-AOC and SOD activities in mice compared with the H group. Based on the results of transcriptome and qPCR, it was confirmed that Tibetan tea could play a key role in antioxidant and lipid lowering by regulating oxidative stress and lipid metabolism related pathways such as insulin resistance, P53 signaling pathway, insulin signaling pathway, fatty acid elongation and fatty acid metabolism. CONCLUSIONS: This study was the first to use computational tools to deeply explore the composition of Tibetan tea and revealed its potential antioxidant and hypolipidemic mechanisms, and it provides new insights into the composition and bioactivity of Tibetan tea.

• Animal Bioscience
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• 제35권9호
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• pp.1327-1339
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• 2022

Objective: Fat deposition in poultry is an important factor in production performance and meat quality research. miRNAs also play important roles in regulating adipocyte differentiation process. This study was to investigate the expression patterns of miRNAs in duck adipocytes after differentiation and explore the role of miR-214 in regulating carnitine palmitoyltransferases 2 (CPT2) gene expression during duck adipocyte differentiation. Methods: Successful systems for the isolation, culture, and induction of duck primary fat cells was developed in the experiment. Using Illumina next-generation sequencing, the miRNAs libraries of duck adipocytes were established. miRanda was used to predict differentially expressed (DE) miRNAs and their target genes. The expression patterns of miR-214 and CPT2 during the differentiation were verified by quantitative real-time polymerase chain reaction and western blot. Luciferase reporter assays were used to explore the specific regions of CPT2 targeted by miR-214. We used a miR-214 over-expression strategy in vitro to further investigate its effect on differentiation process and CPT2 gene transcription. Results: There were 481 miRNAs identified in duck adipocytes, included 57 DE miRNA candidates. And the 1,046 targets genes of DE miRNAs were mainly involved in p53 signaling, FoxO signaling, and fatty acid metabolism pathways. miR-214 and CPT2 showed contrasting expression patterns before and after differentiation, and they were selected for further research. The expression of miR-214 was decreased during the first 3 days of duck adipocytes differentiation, and then increased, while the expression of CPT2 increased both in the transcriptional and protein level. The luciferase assay suggested that miR-214 targets the 3'untranslated region of CPT2. Overexpression of miR-214 not only promoted the formation of lipid droplets but also decreased the protein abundance of CPT2. Conclusion: Current study reports the expression profile of miRNAs in duck adipocytes differentiated for 4 days. And miR-214 has been proved to have the regulator potential for fat deposition in duck.

• Animal Bioscience
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• 제35권10호
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• pp.1489-1498
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• 2022

Objective: The objective of this study was to identify polymorphism in olfactomedin like 3 (OLFML3) gene, and association analysis with meat quality, carcass characteristics, retail meat cut, and fatty acid composition in sheep, and expression quantification of OLFML3 gene in phenotypically divergent sheep. Methods: A total of 328 rams at the age of 10 to 12 months with an average body weight of 26.13 kg were used. A novel polymorphism was identified using high-throughput sequencing in sheep and genotyping of OLFML3 polymorphism was performed using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP). Among 328 rams, 100 rams representing various sheep genotypes were used for association study and proc general linear model was used to analyse association between genotypes and phenotypic traits. Quantitative real-time polymerase chain reaction (qRT-PCR) was used for the expression analysis of OLFML3 mRNA in phenotypically divergent sheep population. Results: The findings revealed a novel polymorphism in the OLFML3 gene (g.90317673 C>T). The OLFML3 gene revealed three genotypes: CC, CT, and TT. The single nucleotide polymorphism (SNP) was found to be significantly (p<0.05) associated with meat quality traits such as tenderness and cooking loss; carcass characteristics such as carcass length; retail meat cut such as pelvic fat in leg, intramuscular fat in loin and tenderloin, muscle in flank and shank; fatty acids composition such as tridecanoic acid (C13:0), palmitoleic acid (C16:1), heptadecanoic acid (C17:0), ginkgolic acid (C17:1), linolenic acid (C18:3n3), arachidic acid (C20:0), eicosenoic acid (C20:1), arachidonic acid (C20:4n6), heneicosylic acid (C21:0), and nervonic acid (C24:1). The TT genotype was associated with higher level of meat quality, carcass characteristics, retail meat cut, and some fatty acids composition. However, the mRNA expression analysis was not different among genotypes. Conclusion: The OLFML3 gene could be a potential putative candidate for selecting higher quality sheep meat, carcass characteristics, retail meat cuts, and fatty acid composition in sheep.

• Animal Bioscience
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• 제35권10호
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• pp.1512-1523
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• 2022

Objective: The growth of pigs involves multiple regulatory mechanisms, and modern molecular breeding techniques can be used to understand the skeletal muscle growth and development to promote the selection process of pigs. This study aims to explore candidate lncRNAs and mRNAs related to skeletal muscle growth and development among Duroc pigs with different average daily gain (ADG). Methods: A total of 8 pigs were selected and divided into two groups: H group (high-ADG) and L group (low-ADG). And followed by whole transcriptome sequencing to identify differentially expressed (DE) lncRNAs and mRNAs. Results: In RNA-seq, 703 DE mRNAs (263 up-regulated and 440 down-regulated) and 74 DE lncRNAs (45 up-regulated and 29 down-regulated) were identified. In addition, 1,418 Transcription factors (TFs) were found. Compared with mRNAs, lncRNAs had fewer exons, shorter transcript length and open reading frame length. DE mRNAs and DE lncRNAs can form 417 lncRNA-mRNA pairs (antisense, cis and trans). DE mRNAs and target genes of lncRNAs were enriched in cellular processes, biological regulation, and regulation of biological processes. In addition, quantitative trait locus (QTL) analysis was used to detect the functions of DE mRNAs and lncRNAs, the most of DE mRNAs and target genes of lncRNAs were enriched in QTLs related to growth traits and skeletal muscle development. In single-nucleotide polymorphism/insertion-deletion (SNP/INDEL) analysis, 1,081,182 SNP and 131,721 INDEL were found, and transition was more than transversion. Over 60% of percentage were skipped exon events among alternative splicing events. Conclusion: The results showed that different ADG among Duroc pigs with the same diet maybe due to the DE mRNAs and DE lncRNAs related to skeletal muscle growth and development.

• International Journal of Molecular Medicine
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• 제43권2호
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• pp.1105-1113
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• 2019

Epigenetic modifier lysine demethylase 3a (Kdm3a) specifically demethylates mono- and di-methylated ninth lysine of histone 3 and belongs to the Jumonji domain-containing group of demethylases. Kdm3a serves roles during various biological and pathophysiological processes, including spermatogenesis and metabolism, determination of sex, androgen receptor-mediated transcription and embryonic carcinoma cell differentiation. In the present study, physiological functions of Kdm3a were evaluated during embryogenesis of Xenopus laevis. Spatiotemporal expression pattern indicated that kdm3a exhibited its expression from early embryonic stages until tadpole stage, however considerable increase of kdm3a expression was observed during the neurula stage of Xenopus development. Depleting kdm3a using kdm3a antisense morpholino oligonucleotides induced anomalies, including head deformities, small-sized eyes and abnormal pigmentation. Whole-mount in situ hybridization results demonstrated that kdm3a knockdown was associated with defects in neural crest migration. Further, quantitative polymerase chain reaction revealed abnormal expression of neural markers in kdm3a morphants. RNA sequencing of kdm3a morphants indicated that kdm3a was implicated in mesoderm formation, cell adhesion and metabolic processes of embryonic development. In conclusion, the results of the present study indicated that Kdm3a may serve a role in neural development during Xenopus embryogenesis and may be targeted for treatment of developmental disorders. Further investigation is required to elucidate the molecular mechanism underlying the regulation of neural development by Kdm3a.

• Environmental Analysis Health and Toxicology
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• 제15권4호
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• pp.131-137
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• 2000

최근 독성 유해물질의 환경으로의 방출로 인해 인간 및 생태계에 대한 위해성 문제가 심각하게 제기되고 있다. 독성화학물질을 포함한 여러 환경 오염물질의 위해성평가는 화학물질의 유해성과 노출량 측정을 동시에 측정함으로써 가능한데 이 경우 생물지표(biomarker)가 최근 각광을 받고 있다. 본 연구에서는 동물의 행동에 관련된 신경전달물질의 생성에 결정적 역할을 하는 tyrosine hydroxylase(TH)및 그 유전자가 생물지표로서 이용 가능성이 있는지를 검토하였다. Ovary cDNA library의 PCR 스크리닝을 통한 송사리 TH유전자를 부분적으로 를론하였으며(327 bp), DNA염기서열 분석 결과 쥐 (rat)의 TH유전자와 동일한 염기서열을 보였다. 그리고 다이아지논 처리구 및 무처리구에서 송사리의 머리부분(head)및 몸통 부분(body)에서 추출된 총RNA에 TH mRNA가 존재함을 RT-PCR를 통하여 확인하였다. 그러나 다이아지논의 처리효과가 송사리의 행동에 미치는 영향을 보기 위해서는 TH의 발현을 보다 정량적으로 검토할 필요가 있을 것으로 판단된다. 생물지표로서 TH의 활성 및 mRNA의 기관별 또는 조직별 검출은 독성물질에 영향을 받는 어류 신경행동 변화를 모니터링 할 수 있는 유용한 수단이 될 것이다. 나아가 환경관리에 있어서 신경화학물질과 분자생물학적 상관관계를 통한 이상반응행동의 분석은 환경 위해성평가에 상당히 기여할 것이다.

• 생명과학회지
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• 제30권9호
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• pp.804-812
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• 2020

본 연구에서는 아메리카왕거저리에 대한 기능성 연구의 일환으로 아메리카왕거저리 유충의 유전체 분석을 통해 선별된 조포바신 1의 항균 및 항염증 활성을 확인하였다. 선행연구에서 RNA 시퀀싱을 통해 아메리카왕거저리의 전사체를 분석하였으며, 결과를 바탕으로 인실리코(in silico) 분석을 수행하여 전사체 유래 항균 펩타이드를 스크리닝하고 선발하였다. 수행된 항균활성 및 용혈활성 테스트에서 조포바신 1은 세균 및 칸디다 진균에 대해 광범위한 항균활성을 나타낸 반면 마우스 적혈구에 대한 용혈활성은 전혀 없었다. 다음으로 마우스 대식세포주 Raw264.7 세포를 이용하여 조포바신 1의 항염증활성을 확인하였다. 그 결과 조포바신 1은 LPS로부터 유도된 Raw264.7 세포들의 산화질소 생성을 감소시키는 결과를 보여주었다. 뿐만 아니라 실시간 역전사 중합효소 연쇄반응(qRT-PCR) 방법과 효소결합면역흡착측정법(ELISA)을 통해 조포바신 1이 Raw264.7 세포에서 전염증성 사이토카인(IL-6, IL-1β)의 발현을 감소시킨다는 것을 확인할 수 있었다. 또한 염증반응의 신호전달인자들(MAPKs, NF-κB)의 인산화를 억제하는 것을 확인하였다. 게다가 조포바신 1은 LPS와의 상호작용을 통해 결합한다는 것을 확인하였다. 이러한 연구결과들은 아메리카왕거저리 유전체 분석을 통해 확인된 조포바신 1이 항균 및 항염증 치료를 위한 물질로서 개발하는데 가능성이 있을 것으로 사료된다.

• Journal of Animal Science and Technology
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• 제51권3호
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• pp.185-192
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• 2009

소 염색체 19번에 존재하는 유지방 함량 및 지방산 조성에 영향을 미치는 양적경제 형질 유전자 좌위에서 발견된 지방산 합성 효소인 FASN 유전자는 포화지방산과 불포화지방산의 함량을 조절하는 강력한 후보유전자이다. 본 연구에서 FASN 유전자의 g.17924 A>G 변이를 한우집단과 미국산 육우 집단에서 분석하였고 그 결과는 한우에서는 GG형의 개체빈도가(71%)로 매우 높았으며, 미국산육우에서는 GG형 빈도는 불과(35%)밖에 되지 않았다. 한우 품종에서 FASN 유전자의 염기서열 분석을 하여 27 개의 단일염기 변이를 발견 하였고, 그 중 9개는 본 연구에서 처음으로 밝혀지는 단일염기 변이이다. 한우 집단 100두와 수입우 집단 96에 대하여 유전자형 분석을 수행한 결과, FASN 유전자 내의 4개의 단일염기 변이의 연관 불평형 및 반수체 구역을 연구하였다. g.10568 C>T와 g.11280 G>A 단일염기 변이의 다형성은 한우집단에서 고기의 육색(P=0.004)과 고기의 조직감(P=0.0114)에 고도의 유의성이 통계적인 분석에 의하여 나타났다. 그리고 g.13125 C>T와 g.17924 G>A 다형성은 등지방두께 및 육량지수에 유의성을 관찰할 수 있었다(P=0.0179, 0.0495). 이상의 결과는 소 FASN 유전자 내의 변이들이 한우집단의 불포화 지방산 함량과 도체 형질에 연관성은 차별화된 고급한우육을 생산하기 위한 중요한 DNA 마커로써 활용가치가 있을 것으로 사료된다.

• 한국미생물·생명공학회지
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• 제46권3호
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• pp.253-260
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• 2018

유용미생물은 임업과 축산 분야에 활용될 뿐만 아니라 병해충 방제와 작물 생육 증진 등의 용도로 농업에서 널리 이용되고 있다. 하지만 유용미생물의 토양에서의 생존율과 정착율에 대한 연구는 미미한 형편이다. 본 연구에서는 마이크로코즘을 이용해 바실러스 3 균주를 토양에 처리한 후, 이들의 토양 내 생존능을 정량 PCR을 이용하여 13일 동안 정량적으로 분석하였다. 또한 Illumina MiSeq 플랫폼을 이용하여 바실러스 3 균주 처리구와 대조구의 토양미생물 군집 분포를 비교 및 분석하였다. 바실러스 3 균주의 처리 직후 토양 내 밀도는 건조토양 1 그람당 평균 $4.4{\times}10^6$ 유전자수로 대조구에 비해 1,000배 이상 높았다. 바실러스 균주의 토양 내 밀도는 처리 후 약 일주일 간 유지되었고 그 후부터는 유의성 있게 감소하였지만 여전히 대조구보다 100배 이상 높았다. 바실러스 균주 처리 후 토양 내 미생물 군집 구조 분석 결과, 대조구와 처리구 모두 Acidobacteria 문($26.3{\pm}0.9%$), Proteobacteria 문($24.2{\pm}0.5%$), Chloroflexi 문($11.1{\pm}0.4%$), Actinobacteria 문($9.7{\pm}2.5%$)에 속하는 세균이 우점하였다. 대조구 대비 처리구에서 Actinobacteria 문의 비율은 뚜렷하게 감소하였지만 Bacteroidetes 문과 Firmicutes 문의 비율은 증가하는 경향이었다. 속 수준에서 바실러스 3 균주를 처리함에 따라 일부 세균 군집의 종 풍부도를 변화되었고, 결국 전체 토착 미생물 군집 구조가 변화되었음을 확인할 수 있었다. 본 연구에서 수행한 유용한 바실러스의 토양 접종 후 이들의 토양 내 생존능 분석 및 토착 세균 군집의 변화는 유용미생물을 생물적 제제로 시설재배지에 사용할 때 중요한 정보를 제공할 것으로 판단된다.