Publications by authors named "Ruiyi Lin"

Context The occurrence of apoptosis due to transient oxidative damage to spermatozoa presents a significant challenge in semen preservation. At present, the addition of protective agents is the primary method for mitigating this damage and involves the addition of protective agents. Aims This study aims to elucidate the mechanism of action of cryopreservation and to identify high-quality combinatorial cryopreservation dilutions.

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Duck Tembusu virus (DTMUV), a novel positive-sense RNA virus, has caused significant economic losses in the poultry industry of Eastern and Southeast Asia since its outbreak in 2010. Furthermore, the rapid transmission and potential zoonotic nature of DTMUV pose a threat to public health safety. In this study, a 4D-DIA quantitative proteomics approach was employed to identify differentially expressed cellular proteins in DTMUV-infected DF-1 cells, which are routinely used for virus isolation and identification for DTMUV, as well as the development of vaccines against other poultry viruses.

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Duck Tembusu virus (DTMUV) is an emerging flavivirus that has inflicted significant economic losses on China's poultry industry. Rapid and accurate detection of DTMUV is crucial for effective prevention and control measures. In this study, we developed a novel, rapid visual detection assay that combines reverse transcriptase loop-mediated isothermal amplification (RT-LAMP) with the CRISPR/Cas12a system for on-site detection of DTMUV.

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Improving egg quality and enhancing production efficiency are essential goals in poultry breeding. CDH5 encodes a cadherin involved in Ca transport in endothelial cells. The role of CDH5 in regulating duck egg quality and its mechanisms affecting Ca concentrations in duck uterine epithelial cells remains unclear.

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Owing to the unique geography and the isolated environment, Guanling cattle, which is one of five local cattle breeds in Guizhou, China, has developed unique characteristics. The number of pure Guanling cattle decreased markedly because of the hybridization with foreign breeds. In the present study, the maternal genetic diversity of 58 Guanling bulls was assessed by whole mitochondrial genome sequencing.

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Fujian Muscovy duck is a well-known meat waterfowl in Fujian Province due to its high meat production, superior breeding potential, and strong resistance. To fully explore the genetic characteristics of these advantages, Fujian black Muscovy duck and white Muscovy duck were used for whole-genome re-sequencing and transcriptome analyses. Population structure analysis showed significant differentiation between the two feather strains.

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Objective: The objective of this study was to unravel the genetic traits of Guanling cattle, pinpoint genes advantageous for muscle growth, and lay a foundation for the preservation of genetic diversity and further analysis of regulation mechanism of important economic traits in local cattle breed.

Methods: In this study, we sequenced the whole genome of 3 Guanling cattle in Guizhou province using the Illumina HiSeq cBo sequencing platform. And, high- multiplex polymerase chain reaction technology was employed to detect high-quality single nucleotide polymorphism (SNP) sites of other 55 Guanling cattle.

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Article Synopsis
  • Understanding the genetic structure and diversity of local duck varieties is essential for their effective management and conservation.
  • A comparative study of Chaohu and Ji'an Red ducks using genome sequencing revealed significant genetic differences and provided insights into their population structure.
  • The identification of candidate genes linked to traits like muscle growth, fat deposits, and pigmentation can aid in the enhancement and preservation of these indigenous duck breeds.
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The assessment of animal genetic structure had significant importance for the preservation and breeding of animal germplasm resources. Selection signals are genotype markers generated during the process of biological evolution, and the detection of selection signals could reveal the direction of species evolution. The aim of this study was to generate a whole-genome resequencing data from Jinding duck, Shanma duck, Youxian Partridge duck, and Taiwan Brown tsaiya duck to reveal their population structure and selection signals.

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The antioxidant properties of crocin are attracting interest, yet the underlying mechanisms by which crocin mitigates oxidative stress-induced intestinal damage have not been determined. This study aimed to elucidate the effects of crocin on oxidative stress, apoptosis, and intestinal epithelial injury in intestinal epithelial cells (IPEC-J2). Using an HO-induced oxidative stress model in IPEC-J2 cells, crocin was added to assess its effects.

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Article Synopsis
  • The Jianli pig is an indigenous Chinese breed known for its two-end black (TEB) coat, high meat quality, adaptability, and prolificacy, but little is understood about its genetic diversity and the genetic basis of its TEB color.
  • A study involving whole genome resequencing of Jianli pigs revealed significant genetic diversity and a close relationship with the Tongcheng pig, along with 451 genes identified that influence meat quality, reproduction, and coat color.
  • Specifically, the EDNRB gene emerged as a key candidate for the TEB coat phenotype, with a specific haplotype linked to its expression, indicating a potential genetic mechanism behind this unique trait.
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Article Synopsis
  • * Researchers conducted a genome-wide association study (GWAS) on a population of 110 ducks, identifying 894 nucleotide changes and 58 candidate genes linked to plumage color.
  • * The MITF gene was highlighted as crucial in melanin production, with further experiments showing significant differences in gene expression that correlate with plumage color, supporting its key role in feather coloration.
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Adipose tissue is the most important energy storage organ in the body, maintaining its normal energy metabolism function and playing a vital role in keeping the energy balance of the body to avoid the harm caused by obesity and a series of related diseases resulting from abnormal energy metabolism. The dysfunction of adipose tissue is closely related to the occurrence of diseases related to obesity metabolism. Among various organelles, mitochondria are the main site of energy metabolism, and mitochondria maintain their quality through autophagy, biogenesis, transfer, and dynamics, which play an important role in maintaining metabolic homeostasis of adipocytes.

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The detrimental impact of obesity on human health is increasingly evident with the rise in obesity-related diseases. Skeletal muscle, the crucial organ responsible for energy balance metabolism, plays a significant role as a secretory organ by releasing various myokines. Among these myokines, interleukin 6 (IL-6) is closely associated with skeletal muscle contraction.

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The assessment of population genetic structure is the basis for understanding the genetic information of indigenous breeds and is important for the protection and management of indigenous breeds. However, the population genetic differentiation of many local breeds still remains unclear. Here, we performed a genome-wide comparative analysis of Jinding, Liancheng white, Putian black, and Shanma ducks based on the genomic sequences using RAD sequencing to understand their population structure and genetic diversity.

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Alzheimer's disease (AD), the most common cause of dementia, is a complex and multifactorial disease involving genetic and environmental factors, with hypercholesterolemia considered as one of the risk factors. Numerous epidemiological studies have reported a positive association between AD and serum cholesterol levels, and experimental studies also provide evidence that elevated cholesterol levels accelerate AD pathology. However, the underlying mechanism of hypercholesterolemia accelerating AD pathogenesis is not clear.

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Background: The Muscovy duck (Cairina moschata) is an economically important duck species, with favourable growth and carcass composition parameters in comparison to other ducks. However, limited genomic resources for Muscovy duck hinder our understanding of its evolution and genetic diversity.

Results: We combined linked-reads sequencing technology and reference-guided methods for de novo genome assembly.

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Background: The most prolific duck genetic resource in the world is located in Southeast/South Asia but little is known about the domestication and complex histories of these duck populations.

Results: Based on whole-genome resequencing data of 78 ducks (Anas platyrhynchos) and 31 published whole-genome duck sequences, we detected three geographic distinct genetic groups, including local Chinese, wild, and local Southeast/South Asian populations. We inferred the demographic history of these duck populations with different geographical distributions and found that the Chinese and Southeast/South Asian ducks shared similar demographic features.

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Microphthalmia-associated transcription factor () is a key regulator for the development and function of melanocytes in skin, eye, and plumage pigmentations. Thus, the was selected as a candidate gene associated with plumage coloration in ducks. This study analyzed the mRNA expression, promoter methylation, and polymorphisms in the gene in ducks with different plumage colors (Putian Black, Putian White, Liancheng White, and Longsheng Jade-green).

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Weaning weight is an important economic trait in the meat rabbit industry. Evidence has linked the gut microbiota to health and production performance in rabbits. However, the effect of gut microbiota on meat rabbit weaning weight remains unclear.

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Allelic differential expression (ADE) is common in diploid organisms, and is often the key reason for specific phenotype variations. Thus, ADE detection is important for identification of major genes and causal mutations. To date, sensitive and simple methods to detect ADE are still lacking.

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Article Synopsis
  • The study investigates the regulation of the UCP3 gene, which is linked to meat quality in pigs, focusing on how its expression is affected by DNA methylation.
  • It employs bisulfite sequencing PCR and Q-PCR to analyze methylation patterns and UCP3 mRNA levels in various pig breeds at different ages.
  • Findings reveal that the methylation level of a specific CpG island in the UCP3 promoter varies with age and breed, significantly affecting UCP3 expression in skeletal muscle but not in adipose tissue.
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Feed efficiency (FE) is one of the main factors that determine the production costs in the pig industry. In this study, RNA Sequencing (RNA-seq) was applied to identify genes and long intergenic non-coding RNAs (lincRNAs) that are differentially expressed (DE) in the adipose tissues of Yorkshire pigs with extremely high and low FE. In total, 147 annotated genes and 18 lincRNAs were identified as DE between high- and low-FE pigs.

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Analysis of cancerous cells allows us to provide useful information for the early diagnosis of cancer and to monitor treatment progress. An approach based on electrical principles has recently become an attractive technique. This study presents a microdevice that utilizes a dielectrophoretic impedance measurement method for the identification of cancerous cells.

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The duck is one of the most economically important waterfowl as a source of meat, eggs, and feathers. Characterizing the genetic variation in duck species is an important step toward linking genes or genomic regions with phenotypes. Human-driven selection during duck domestication and subsequent breed formation has likely left detectable signatures in duck genome.

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