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Evolutionary impacts of purine metabolism genes on mammalian oxidative stress adaptation

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Zoological Research 2022年第2期43卷 241-254页

作者： Ran Tian Chen Yang Si-Min Chai Han Guo inge seim Guang Yang Jiangsu Key Laboratory for Biodiversity and Biotechnology College of Life SciencesNanjing Normal UniversityNanjingJiangsu 210023China Integrative Biology Laboratory College of Life SciencesNanjing Normal UniversityNanjingJiangsu 210023China School of Biology and Environmental Science Queensland University of TechnologyBrisbaneQueensland 4001Australia

Many mammals risk damage from oxidative stress stemming from frequent dives(i.e., cycles of ischemia/reperfusion and hypoxia/reoxygenation),high altitude and subterranean environments, or powered flight. Purine metabolism is an essential response to oxidative stress, and an imbalance between purine salvage and de novo biosynthesis pathways can generate damaging reactive oxygen species(ROS). Here, we examined the evolution of 117 purine metabolism-related genes to explore the accompanying molecular mechanisms of enhanced purine metabolism in mammals under high oxidative stress. We found that positively selected genes,convergent changes, and nonparallel amino acid substitutions are possibly associated with adaptation to oxidative stress in mammals. In particular, the evolution of convergent genes with c AMP and c GMP regulation roles may protect mammals from oxidative damage. Additionally, 32 genes were identified as under positive selection in cetaceans, including key purine salvage enzymes(i.e., HPRT1), suggesting improved re-utilization of non-recyclable purines avoid hypoxanthine accumulation and reduce oxidative stress. Most intriguingly, we found that six unique substitutions in cetacean xanthine dehydrogenase(XDH), an enzyme that regulates the generation of the ROS precursor xanthine oxidase(XO) during ischemic/hypoxic conditions, show enhanced enzyme activity and thermal stability and diminished XO conversion activity. These functional adaptations are likely beneficial for cetaceans by reducing radical oxygen species production during diving. In summary, our findings offer insights into the molecular and functional evolution of purine metabolism genes in mammalian oxidative stress adaptations.

关键词： Evolution Mammals Cetaceans Purine metabolism Oxidative stress

Comparative analyses of aging-related genes in long-lived mammals provide insights into natural longevity

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The Innovation 2021年第2期2卷 31-39页

作者： Zhenpeng Yu inge seim Mengxin Yin Ran Tian Di Sun Wenhua Ren Guang Yang Shixia Xu Jiangsu Key Laboratory for Biodiversity and Biotechnology College of Life SciencesNanjing Normal UniversityNanjing 210023China Integrative Biology Laboratory College of Life SciencesNanjing Normal UniversityNanjing 210023China School of Biology and Environmental Science Faculty of Science and EngineeringQueensland University of TechnologyBrisbaneQLDAustralia

Extreme longevity has evolved multiple times during the evolution of mammals,yet its underlying molecular mechanisms remain largely ***,we compared the evolution of 115 aging-related genes in 11 long-lived species and 25 mammals with non-increased lifespan(control group)in the hopes of better understanding the common molecular mechanisms behind *** identified 16 unique positively selected genes and 23 rapidly evolving genes in long-lived species,which included nine genes involved in regulating lifespan through the insulin/IGF-1 signaling(IIS)pathway and 11 genes highly enriched in immune-response-related pathways,suggesting that the IIS pathway and immune response play a particularly important role in exceptional mammalian ***,11 genes related to cancer progression,including four positively selected genes and seven genes with convergent amino acid changes,were shared by two or more long-lived lineages,indicating that long-lived mammals might have evolved convergent or similar mechanisms of cancer resistance that extended their *** suggestion was further corroborated by our identifi-cation of 12 robust candidates for longevity-related genes closely related to cancer.

关键词： mammals longevity positive selection IIS pathway immune response cancer resistance

High-quality chromosome-level genome assembly of the melon-headed whale(Peponocephala electra)

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Zoological Research 2022年第6期43卷 931-934页

作者： Zhen-Peng Yu Xing Liu Biao Zhang Lei Shan inge seim Guang Yang Shi-Xia Xu Jiangsu Key Laboratory for Biodiversity and Biotechnology College of Life SciencesNanjing Normal UniversityNanjingJiangsu 210023China

DEAR EDITOR,The melon-headed whale(Peponocephala electra),a small toothed whale in the Delphinidae family,inhabits tropical and subtropical *** is an attractive model species for studying secondary aquatic adaptation and ***,we successfully assembled a high-quality chromosome-level genome of *** using Pac Bio and Hi-C sequencing technologies.

关键词： evolution subtropical tropical

A chromosome-level genome of electric catfish(Malapterurus electricus)provided new insights into order Siluriformes evolution

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Marine Life Science & Technology 2024年第1期6卷 1-14页

作者： Meiru Liu Yue Song Suyu Zhang Lili Yu Zengbao Yuan Hengjia Yang Mengqi Zhang Zhuocheng Zhou inge seim Shanshan Liu Guangyi Fan Huanming Yang College of Life Sciences University of Chinese Academy of SciencesBeijing 100049China BGI-Qingdao BGI-ShenzhenQingdao 266555China BGI-Shenzhen Shenzhen 518083China Professional Committee of Native Aquatic Organisms and Water Ecosystem of China Fisheries Association Beijing 100125China Integrative Biology Laboratory College of Life SciencesNanjing Normal UniversityNanjing 210023China State Key Laboratory of Agricultural Genomics BGI-ShenzhenShenzhen 518083China

The electric catfish(Malapterurus electricus),belonging to the family Malapteruridae,order Siluriformes(Actinopterygii:Ostariophysi),is one of the six branches that has independently evolved electrical *** assembled a 796.75 Mb *** genome and anchored 88.72%sequences into 28 *** family analysis revealed 295 expanded gene families that were enriched on functions related to glutamate *** evolutionary analyses of electric organs among different lineage of electric fishes further revealed that the coding gene of rho guanine nucleotide exchange factor 4-like(arhgef4),which is associated with G-protein coupled receptor(GPCR)signaling pathway,underwent adaptive parallel *** identification suggests visual degradation in catfishes,and an important role for taste in environmental *** findings fill in the genomic data for a branch of electric fish and provide a relevant genetic basis for the adaptive evolution of Siluriformes.

关键词： Electric fish Karyotype analysis Convergent evolution Environmental adaptation Historical effective population size

大尺度转录组分析揭示哺乳动物寿命演化的遗传和选择压力特征

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大尺度转录组分析揭示哺乳动物寿命演化的遗传和选择压力特征

Ghrelin's second life:From appetite stimulator to glucose regulator

第十六届全国野生动物生态与资源保护学术研讨会

作者：刘伟强朱平芬李萌李子豪俞阳刘高鸣杜娟王潇杨婧田然 inge seim Alaattin Kaya 李明洲李明 Vadim N Gladyshev 周旭明中国科学院动物研究所动物生态与保护生物学重点实验室中国科学院大学中国科学技术大学生命科学与医学部南京师范大学生命科学学院 School of Biology and Environmental Science Queensland University of Technology Department of Biology Virginia Commonwealth University 四川农业大学动物科技学院动物遗传育种研究中心 Division of Genetics Department of MedicineBrigham and Women's HospitalHarvard Medical School

哺乳动物的寿命差异很大,最短和最长的物种之间的差异超过100倍。这种自然差异可能会揭示决定长寿的进化力量和分子特征。为了探究基因表达的变化与寿命的关系,本研究对103种哺乳动物的肝、肾和脑组织进行了比较转录组学分析。结果发现... 详细信息

哺乳动物的寿命差异很大,最短和最长的物种之间的差异超过100倍。这种自然差异可能会揭示决定长寿的进化力量和分子特征。为了探究基因表达的变化与寿命的关系,本研究对103种哺乳动物的肝、肾和脑组织进行了比较转录组学分析。结果发现,仅有很少的基因在所分析的三个器官中表现出共同的长寿表达模式。然而,与转录和翻译保真度相关的途径与哺乳动物的寿命相关,例如无义介导的衰变和真核细胞的翻译延伸等。另外,本研究对不同基因分类的比较分析发现,与寿命相关的基因富集在必需基因和在哺乳动物分化之前的‘Old’基因中。这表明细胞中具有必需功能的基因的表达变化对物种的寿命控制和演化比较重要。对选择压力的分析发现,与长寿相关基因随寿命变化的方向关联的选择强度在不同器官之间是不一致的。此外,蛋氨酸限制相关基因的表达与寿命相关,并且在长寿哺乳动物中处于强化选择之下,这表明自然选择和人工干预使用了一种共同的策略来控制寿命。我们的结果表明,通过基因表达来调节寿命是通过多基因微效性和间接的自然选择来驱动的。

关键词：哺乳动物比较转录组寿命自然选择

来源： cnki会议评论

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World Journal of Gastroenterology 2012年第25期18卷 3183-3195页

作者： Pieter-Jan Verhulst inge Depoortere Translational Research Center for Gastrointestinal Disorders Catholic University of Leuven3000 LeuvenBelgium

Ghrelin,a 28 amino acid peptide hormone produced by the stomach,was the first orexigenic hormone to be discovered from the *** octanoyl modification at Ser3,mediated by ghrelin O-acyltransferase(GOAT),is essential for ghrelin's biological *** stimulates food intake through binding to its receptor(GRLN-R) on neurons in the arcuate nucleus of the *** is widely expressed throughout the body;accordingly,it is implicated in several other physiological functions,which include growth hormone release,gastric emptying,and body weight *** and GRLN-R expression are also found in the pancreas,suggesting a local physiological ***,several recent studies now point towards an important role for ghrelin and its receptor in the regulation of blood glucose homeostasis,which is the main focus of this *** mechanisms of this regulation by ghrelin have been proposed,and one possibility is through the regulation of insulin *** some controversy,most studies suggest that ghrelin exerts an inhibitory effect on insulin secretion,resulting in increased circulating glucose *** may thus be a diabetogenic ***-related type2 diabetes has become an increasingly important health problem,almost reaching epidemic proportions in the world;therefore,antagonists of the ghrelin-GOAT signaling pathway,which will tackle both energy-and glucose homeostasis,may be considered as promising new therapies for this disease.

关键词： Ghrelin Blood glucose Pancreas Diabetes Insulin

Crushed rocks stabilized with organosilane and lignosulfonate in pavement unbound layers:Repeated load triaxial tests

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Frontiers of Structural and Civil Engineering 2021年第2期15卷 412-424页

作者： Diego Maria BARBIERI inge HOFF Chun-Hsing HO Department of Civil and Environmental Engineering Norwegian University of Science and TechnologyTrondheimTrøndelag7491Norway Department of Civil and Environmental Engineering Northern Arizona UniversityFlagstaffAZ86011USA

The creation of the new“Ferry-Free Coastal Highway Route E39”in southwest Norway entails the production of a remarkable quantity of crushed *** resources could be beneficially employed as aggregates in the unbound courses of the highway itself or other road pavements present *** innovative stabilizing agents,organosilane and lignosulfonate,can significantly enhance the key properties,namely,resilient modulus and resistance against permanent deformation,of the aggregates that are excessively weak in their natural *** beneficial effect offered by the additives was thoroughly evaluated by performing repeated load triaxial *** study adopted the most common numerical models to describe these two key mechanical *** increase in the resilient modulus and reduction in the accumulated vertical permanent deformation show the beneficial impact of the ***,a finite element model was created to simulate the repeated load triaxial test by implementing nonlinear elastic and plastic constitutive relationships.

关键词： organosilane lignosulfonate crushed rocks pavement unbound layers repeated load triaxial test finite element analysis

RTP-based broadcast streaming of high definition H.264/AVC video: an error robustness evaluation

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Journal of Zhejiang University-Science A(Applied Physics & Engineering) 2006年第Z1期7卷 19-26页

作者： HILLESTAD Odd inge JETLUND Ola PERKIS Andrew Centre for Quantifiable Quality of Service in Communication Systems Norwegian University of Science and Technology Trondheim N-7491Norway

In this work, we present an evaluation of the performance and error robustness of RTP-based broadcast streaming of high-quality high-definition (HD) H.264/AVC video. Using a fully controlled IP test bed (Hillestad et al., 2005), we broadcast high-definition video over RTP/UDP, and use an IP network emulator to introduce a varying amount of randomly distributed packet loss. A high-performance network interface monitoring card is used to capture the video packets into a trace file. Purpose-built software parses the trace file, analyzes the RTP stream and assembles the correctly received NAL units into an H.264/AVC Annex B byte stream file, which is subsequently decoded by JVT JM 10.1 reference software. The proposed measurement setup is a novel, practical and intuitive approach to perform error resilience testing of real-world H.264/AVC broadcast applications. Through a series of experiments, we evaluate some of the error resilience features of the H.264/AVC standard, and see how they perform at packet loss rates from 0.01% to 5%. The results confirmed that an appropriate slice partitioning scheme is essential to have a graceful degradation in received quality in the case of packet loss. While flexible macroblock ordering reduces the compression efficiency about 1 dB for our test material, reconstructed video quality is improved for loss rates above 0.25%.

关键词： H.264/AVC Video streaming Error robustness

Current hepatitis B virus infection situation in Indonesia and its genetic diversity

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World Journal of Gastroenterology 2016年第32期22卷 7264-7274页

作者： Maria inge Lusida Juniastuti Yoshihiko Yano Institute of Tropical Disease Airlangga Health Science Institute Airlangga University Department of Microbiology Faculty of Medicine Airlangga University Center for Infectious Diseases Kobe University Graduate School of Medicine

Indonesia has a moderate to high endemicity of hepatitis B virus(HBV) infection. The risk for chronic HBV infection is highest among those infected during infancy. Since 1997, hepatitis B(Hep B) vaccination of newborns has been fully integrated into the National Immunization Program. Al though HBV infection has been reduced by the universal newborn Hep B immunization program, it continues to occur in Indonesia. The low birth dose coverage and the presence of vaccine escape mutants might contribute to this endemicity among children. Although limited information is available for an analysis of occult HBV infection(OBI), several variations and substitutions in the pre-S/S region have been detected in Indonesian HBV strains. Additionally, persistent infection and disease progression of chronic hepatitis B are related to not only viral factors but also the host genome. Indonesia is one of the most ethnically heterogeneous nations, with Javanese and Sundanese as the two highest ethnic groups. This multi-ethnicity makes genomic research in Indonesia difficult. In this article, we focused on and reviewed the following aspects: the current hepatitis B immunization program and its efficacy, OBI, HBV infection among high-risk patients, such as hemodialysis patients, and research regarding the host genome in Indonesia.

关键词： Hepatitis B virus Immunization Occult infection Hemodialysis Indonesia