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Strain-specific effect of Streptococcus thermophilus consumption on host physiology

Food Science and Human Wellness 2024年第5期13卷 2876-2888页

作者： Peng Yu Yang Jiang Yuqi Pan Min Guo Bo Yang Xiaoming Liu Jianxin Zhao Hao Zhang Wei Chen State Key laboratory of Food Science and Technology Jiangnan UniversityWuxi 214122China School of Food Science and Technology Jiangnan UniversityWuxi 214122China International Joint research laboratory for Pharmabiotics&Antibiotic Resistance Jiangnan UniversityWuxi 214122China Wuxi Translational Medicine research Center and Jiangsu Translational Medicine research Institute Wuxi Branch Wuxi 214122China National Engineering research Centre for Functional Food Wuxi 214122China

Streptococcus thermophilus is one of the most prevalent species in stool samples of westernized populations due to continuous exposure to fermented dairy ***,few studies have explored the effect on host physiology by multiple *** strains and considered the inter-strain differences in regulating *** the present study,we investigated how four *** strains influenced the gut microbiota,mucin changes,and host metabolism after 28 days of intervention in conventional *** results indicated that the consumption of *** affected the host with strain *** four *** strains,DYNDL13-4 and DQHXNQ38M61,especially DQHXNQ38M61,had more effect on host physiology by modulating gut microbiota and host metabolism than LMD9 and *** of strains DYNDL13-4 and DQHXNQ38M61 resulted in more remarkable changes in amino acid metabolism and lipid metabolism than that of strains LMD9 and 4M6,which may be related to the elevation of intestinal Bifidobacterium by DYNDL13-4 and *** enriched Coriobacteriaceae UCG-002,Rikenellaceae RC9 gut group,and Lactobacillus only in the DQHXNQ38M61 group,had a close relationship with the prominent effect of DQHXNQ38M61 on regulating amino acid and lipid *** addition,DQHXNQ38M61 had a strong influence on degrading colonic mucin fucose by decreasedα-fucosidase activity in feces,and improving mucin sulfation by upregulated Gal3ST2 *** genomic analysis revealed that the four *** strains belonged to different branches in the phylogenetic tree,and DYNDL13-4 and DQHXNQ38M61 had more genes involved in carbohydrate metabolism,amino acid metabolism,membrane transport,and signal transduction,which may confer the capacity of nutrient utilization and gastrointestinal adaptation of the strains and be associated with their strong regulation in *** study provides valuable information for understanding the regulation of host metabolism aft

关键词： Streptococcus thermophilus Intestinal microbiota Metabolome Comparative genomics

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Tale of mitochondria and mitochondria-associated ER membrane in patient-derived neuronal models of Wolfram syndrome

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Neural Regeneration research 2025年第09期 2587-2588页

作者： Laetitia Aubry Timothy Barrett Sovan Sarkar I-STEM CECSCorbeil-EssonnesFrance (Aubry L) Universite Paris-SaclayUniversité d'EvryINS ERMI-STEM Institute of Cancer and genomic Sciences Institute of Biomedical ResearchCollege of Medical and Dental SciencesUniversity of Birmingham Department of Endocrinology Birmingham Women's and Children's Hospital

Mitochondria and mitochondria-associated endoplasmic reticulum membrane in neurodegenerative diseases:Mitochondria generate most of the chemical energy needed to power the biochemical reactions of cells,and thus are often referred to as the "powerhouse" of the ***,this organelle is also involved in a pleth,ora of different cellular functions such as calcium(Ca2+) homeostasis,apoptosis,oxidative stress,and several metabolic pathways including oxidative phosphorylation,tricarboxylic acid cycle,and β-oxidation of fatty acids.

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Leveraging the potential of big genomic and phenotypic data for genome-wide association mapping in wheat

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The Crop Journal 2024年第3期12卷 803-813页

作者： Moritz Lell Yusheng Zhao Jochen C.Reif Leibniz Institute of Plant Genetics and Crop Plant research(IPK) Corrensstraße 3D-06466 SeelandGermany

Genome-wide association mapping studies(GWAS)based on Big Data are a potential approach to improve marker-assisted selection in plant *** number of available phenotypic and genomic data sets in which medium-sized populations of several hundred individuals have been studied is rapidly *** these data and using them in GWAS could increase both the power of QTL discovery and the accuracy of estimation of underlying genetic effects,but is hindered by data heterogeneity and lack of *** this study,we used genomic and phenotypic data sets,focusing on Central European winter wheat populations evaluated for heading *** explored strategies for integrating these data and subsequently the resulting potential for *** interoperability between data sets was greatly aided by some overlapping genotypes and a linear relationship between the different phenotyping protocols,resulting in high quality integrated phenotypic *** this context,genomic prediction proved to be a suitable tool to study relevance of interactions between genotypes and experimental series,which was low in our *** to expectations,fewer associations between markers and traits were found in the larger combined data than in the individual experimental ***,the predictive power based on the marker-trait associations of the integrated data set was higher across data ***,the results show that the integration of medium-sized to Big Data is an approach to increase the power to detect QTL in *** results encourage further efforts to standardize and share data in the plant breeding community.

关键词： Big Data Genome-wide association study Data integration genomic prediction Wheat

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Upgraded durian genome reveals the role of chromosome reshuffling during ancestral karyotype evolution,lignin biosynthesis regulation,and stress tolerance

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Science China(Life Sciences) 2024年第6期67卷 1266-1279页

作者： Wanwan Li Xin Chen Jianing Yu Yuxian Zhu College of Life Sciences Shaanxi Normal UniversityXi’an 710119China The State Key laboratory of Protein and Gene research College of Life SciencesPeking UniversityBeijing 100871China The Institute for Advanced Studies Wuhan UniversityWuhan 430072China

Durian(Durio zibethinus)is a tropical fruit that has a unique flavor and *** occupies a significant phylogenetic position within the Malvaceae *** core-eudicot plants are reported to share seven ancestral karyotypes that have undergone reshuffling,resulting in an abundant genomic ***,the ancestral karyotypes of the Malvaceae family,as well as the evolution trajectory leading to the28 chromosomes in durian,remain poorly ***,we report the high-quality assembly of the durian genome with comprehensive comparative genomic *** analyzing the collinear blocks between cacao and durian,we inferred 11 Malvaceae ancestral *** blocks were present in a single-copy form in cacao and mainly in triplicates in durian,possibly resulting from a recent whole genome triplication(WGT)event that led to hexaploidization of the durian genome around 20(17–24)million years ago.A large proportion of the duplicated genes in durian,such as those involved in the lignin biosynthesis module for phenylpropane biosynthesis,are derived directly from whole genome duplication,which makes it an important force in reshaping its genomic *** studies have revealed that genes involved in feruloyl-Co A formations were highly preferentially expressed in fruit peels,indicating that the thorns produced on durian fruit may comprise guaiacyl and syringyl *** all the analyzed transcription factors(TFs),members of the heat shock factor family(HSF)were the most significantly upregulated under heat *** subfamilies of genes encoding heat shock proteins(HSPs)in the durian genome appear to have undergone *** potential interactions between HSF Dzi05.397 and HSPs were examined and experimentally *** study provides a high-quality durian genome and reveals the reshuffling mechanism of ancestral Malvaceae chromosomes to produce the durian *** also provide insights into the mechanism underlying lignin bi

关键词： Durio zibethinus whole genome duplication whole genome triplication Malvaceae ancestral karyotypes chromosome reshuffling lignin biosynthesis heat stress

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Tale of mitochondria and mitochondria-associated ER membrane in patient-derived neuronal models of Wolfram syndrome

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Neural Regeneration research 2025年第9期20卷 2587-2588页

作者： Laetitia Aubry Timothy Barrett Sovan Sarkar I-STEM CECSCorbeil-EssonnesFrance UniversitéParis-Saclay Universitéd’EvryINSERMI-STEMUMR861Corbeil-EssonnesFrance Institute of Cancer and genomic Sciences Institute of Biomedical ResearchCollege of Medical and Dental SciencesUniversity of BirminghamEdgbastonBirminghamUK(Barrett T Department of Endocrinology Birmingham Women’s and Children’s HospitalSteelhouse LaneBirminghamUK

Mitochondria and mitochondria-associated endoplasmic reticulum membrane in neurodegenerative diseases:Mitochondria generate most of the chemical energy needed to power the biochemical reactions of cells,and thus are often referred to as the"powerhouse"of the ***,this organelle is also involved in a pleth,ora of different cellular functions such as calcium(Ca^(2+))homeostasis,apoptosis,oxidative stress,and several metabolic pathways including oxidative phosphorylation,tricarboxylic acid cycle,andβ-oxidation of fatty acids.

关键词： oxidative cycle carboxylic

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Significant genomic introgression from grey junglefowl(Gallus sonneratii)to domestic chickens(Gallus gallus domesticus)

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Journal of Animal Science and Biotechnology 2024年第4期15卷 1482-1493页

作者： Xiurong Zhao Junhui Wen Xinye Zhang Jinxin Zhang Tao Zhu Huie Wang Weifang Yang Guomin Cao Wenjie Xiong Yong Liu Changqing Qu Zhonghua Ning Lujiang Qu National Engineering laboratory for Animal Breeding College of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China Key laboratory of Protection and Utilization of Biological Resources in Tarim Basin Xinjiang Production and Construction CorpsTarim UniversityAlar 843300China Beijing Municipal General Station of Animal Science Beijing 100107China Animal husbandry station of Fangchenggang FangchenggangGuangxi Province 538001China Animal Disease Prevention and Control Center of Fangchenggang FangchenggangGuangxi Province 538001China Beijing Agricultural Effect Poultry Industry Co. Ltd.Beijing 101100China Engineering Technology research Center of Anti‑aging Chinese Herbal Medicine of Anhui Province Fuyang Normal UniversityFuyangAnhui 236037China

Background Chicken is one of the most numerous and widely distributed species around the world,and many studies support the multiple ancestral origins of domestic *** research regarding the yellow skin phenotype in domestic chickens(regulated by BCO2)likely originating from the grey junglefowl serves as crucial evidence for demonstrating the multiple origins of ***,beyond the BCO2 gene region,much remains unknown about the introgression from the grey junglefowl into domestic ***,in this study,based on wholegenome data of 149 samples including 4 species of wild junglefowls and 13 local domestic chicken breeds,we explored the introgression events from the grey junglefowl to domestic *** We successfully detected introgression regions besides BCO2,including two associated with growth trait(IGFBP2 and TKT),one associated with angiogenesis(TIMP3)and two members of the heat shock protein family(HSPB2 and CRYAB).Our findings suggest that the introgression from the grey junglefowl may impact the growth performance of ***,we revealed introgression events from grey junglefowl at the BCO2 region in multiple domestic chicken breeds,indicating a phenomenon where the yellow skin phenotype likely underwent strong selection and was ***,our haplotype analysis shed light on BCO2 introgression event from different sources of grey junglefowl into domestic chickens,possibly suggesting multiple genetic flows between the grey junglefowl and domestic *** In summary,our findings provide evidences of the grey junglefowl contributing to the genetic diversity of domestic chickens,laying the foundation for a deeper understanding of the genetic composition within domestic chickens,and offering new perspectives on the impact of introgression on domestic chickens.

关键词： BCO2 Domestic chickens Grey junglefowl Introgression

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RIOK1 synergizes with TRIP13 by regulating the E2F-Rb signaling pathway to promote the proliferation of esophageal cancer cells

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Genes & Diseases 2024年第3期11卷 55-58页

作者： Chengyu Li Deyuan Pan Wan Lin Danxia Deng Yingxin Zhou Hui Zhao Feng Pan Liyan Xu Enmin Li Lin Long The Key laboratory of Molecular Biology for High Cancer Incidence Coastal Chaoshan Area Department of Biochemistry and Molecular BiologyShantou University Medical CollegeShantouGuangdong 515041China Guangdong Provincial Key laboratory of Infectious Diseases and Molecular Immunopathology Institute of Oncologic PathologyShantou University Medical CollegeShantouGuangdong 515041China Institute of Basic Medical Science Cancer Research CenterShantou University Medical CollegeShantouGuangdong 515041China Clinical research Center Shantou Central HospitalShantouGuangdong 515041China

Esophageal cancer is one of the leading causes of cancer death in the world,with approximately half of the new cases occurring in China every year.^(1)Esophageal squamous cell carcinoma(ESCC)is the main subtype,accounting for more than 90%,and the five-year survival rate is less than 10%.Using large-scale genome analysis,many driver mutations and key pathways associated with ESCC have been ***,these genomic signatures have not improved the clinical management of EscC patients,or established effective targeted therapy.^(2)Esophageal cancer still lacks representative molecular markers.

关键词： cancer esophageal Esophageal

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Evolutionary genomics of climatic adaptation and resilience to climate change in alfalfa

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Molecular Plant 2024年第6期17卷 867-883页

作者： Fan Zhang Ruicai Long Zhiyao Ma Hua Xiao Xiaodong Xu Zhongjie Liu Chunxue Wei Yiwen Wang Yanling Peng Xuanwen Yang Xiaoya Shi Shuo Cao Mingna Li Ming Xu Fei He Xueqian Jiang Tiejun Zhang Zhen Wang Xianran Li Long-Xi Yu Junmei Kang Zhiwu Zhang Yongfeng Zhou Qingchuan Yang Institute of Animal Science Chinese Academy of Agricultural SciencesBeijing 100193China National Key laboratory of Tropical Crop Breeding Shenzhen BranchGuangdong Laboratory of Lingnan Modern AgricultureKey Laboratory of Synthetic BiologyMinistry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518000China School of Grassland Science Beijing Forestry UniversityBeijing 100083China Department of Agronomy and Horticulture University of Nebraska-LincolnLincolnNE 68583USA Department of Crop and Soil Sciences Washington State UniversityPullmanWA 99163USA U.S.Department of Agriculture-Agricultural research Service Plant Germplasm Introduction and Testing ResearchProsserWA 99350USA National Key laboratory of Tropical Crop Breeding Tropical Crops Genetic Resources InstituteChinese Academy of Tropical Agricultural SciencesHaikou 571101China

Given the escalating impact of climate change on agriculture and food security,gaining insights into the evolutionary dynamics of climatic adaptation and uncovering climate-adapted variation can empower the breeding of climate-resilient crops to face future climate ***(Medicago sativa ***),the queen of forages,shows remarkable adaptability across diverse global environments,making it an excellent model for investigating species responses to climate *** this study,we performed population genomic analyses using genome resequencing data from 702 accessions of 24 Medicago species to unravel alfalfa’s climatic adaptation and genetic susceptibility to future climate *** found that interspecific genetic exchange has contributed to the gene pool of alfalfa,particularly enriching defense and stress-response *** introgression between *** ***(***)and alfalfa not only aids alfalfa’s climatic adaptation but also introduces genetic burden.A total of 1671 genes were associated with climatic adaptation,and 5.7%of them were introgressions from *** integrating climate-associated variants and climate data,we identified populations that are vulnerable to future climate change,particularly in higher latitudes of the Northern *** findings serve as a clarion call for targeted conservation initiatives and breeding *** also identified preadaptive populations that demonstrate heightened resilience to climate fluctuations,illuminating a pathway for future breeding ***,this study enhances our understanding about the local adaptation mechanisms of alfalfa and facilitates the breeding of climate-resilient alfalfa cultivars,contributing to effective agricultural strategies for facing future climate change.

关键词： Medicago local adaptation population genetics adaptive introgression genetic vulnerability alfalfa breeding

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Enhancing whole yeast genome rearrangements through multiple LoxPsym sequences

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Science China(Life Sciences) 2024年第9期67卷 2045-2047页

作者： Bing-Zhi Li Ying-Jin Yuan Frontiers Science Center for Synthetic Biology and Key laboratory of Systems Bioengineering(Ministry of Education) School of Chemical Engineering and TechnologyTianjin UniversityTianjin 300072China Frontiers research Institute for Synthetic Biology Tianjin UniversityTianjin 300072China

genomic rearrangements play a significant role in disease,evolution,and tumorigenesis(Mani and Chinnaiyan,2010).While single nucleotide polymorphisms(SNPs)and small insertions/deletions contribute substantially to gen... 详细信息

关键词： insertion sequences

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Intratumoural microbiota:a new frontier in cancer development and therapy

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Signal Transduction and Targeted Therapy 2024年第2期9卷 597-620页

作者： Yaqi Cao Hui Xia Xueyun Tan Chunwei Shi Yanling Ma Daquan Meng Mengmeng Zhou Zhilei Lv Sufei Wang Yang Jin Department of Respiratory and Critical Care Medicine Hubei Province Clinical Research Center for Major Respiratory DiseasesKey Laboratory of Respiratory Diseases of National Health CommissionState Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious DiseasesUnion HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhanHubei 430022China Hubei Province Engineering research Center for Tumour-Targeted Biochemotherapy MOE Key Laboratory of Biological Targeted TherapyUnion HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhanHubei 430022China Hubei Province Key laboratory of Biological Targeted Therapy Union HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhanHubei 430022China Department of Pathogen Biology School of Basic MedicineTongji Medical CollegeHuazhong University of Science and TechnologyWuhanHubei 430022China

Human microorganisms,including bacteria,fungi,and viruses,play key roles in several physiological and pathological *** studies discovered that tumour tissues once considered sterile actually host a variety of microorganisms,which have been confirmed to be closely related to *** concept of intratumoural microbiota was subsequently *** could colonise tumour tissues through mucosal destruction,adjacent tissue migration,and hematogenic invasion and affect the biological behaviour of tumours as an important part of the tumour *** studies have demonstrated that intratumoural microbiota potentially promote the initiation and progression of tumours by inducing genomic instability and mutations,affecting epigenetic modifications,promoting inflammation response,avoiding immune destruction,regulating metabolism,and activating invasion and *** more comprehensive and profound insights about intratumoral microbiota are continuously emerging,new methods for the early diagnosis and prognostic assessment of cancer patients have been under *** addition,interventions based on intratumoural microbiota show great potential to open a new chapter in antitumour therapy,especially immunotherapy,although there are some inevitable ***,we aim to provide an extensive review of the concept,development history,potential sources,heterogeneity,and carcinogenic mechanisms of intratumoural microorganisms,explore the potential role of microorganisms in tumour prognosis,and discuss current antitumour treatment regimens that target intratumoural microorganisms and the research prospects and limitations in this field.

关键词： tumour invasion metabolism

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