Advances in Genetics最新文献_第5页

Impact of evolution on lifestyle in microbiome. 微生物组进化对生活方式的影响。

4区生物学

Advances in Genetics Pub Date : 2024-01-01 Epub Date: 2024-03-15 DOI: 10.1016/bs.adgen.2024.02.003

Adriana González, Asier Fullaondo, Adrián Odriozola

{"title":"Impact of evolution on lifestyle in microbiome.","authors":"Adriana González, Asier Fullaondo, Adrián Odriozola","doi":"10.1016/bs.adgen.2024.02.003","DOIUrl":"10.1016/bs.adgen.2024.02.003","url":null,"abstract":"This chapter analyses the interaction between microbiota and humans from an evolutionary point of view. Long-term interactions between gut microbiota and host have been generated as a result of dietary choices through coevolutionary processes, where mutuality of advantage is essential. Likewise, the characteristics of the intestinal environment have made it possible to describe different intrahost evolutionary mechanisms affecting microbiota. For its part, the intestinal microbiota has been of great importance in the evolution of mammals, allowing the diversification of dietary niches, phenotypic plasticity and the selection of host phenotypes. Although the origin of the human intestinal microbial community is still not known with certainty, mother-offspring transmission plays a key role, and it seems that transmissibility between individuals in adulthood also has important implications. Finally, it should be noted that certain aspects inherent to modern lifestyle, including refined diets, antibiotic intake, exposure to air pollutants, microplastics, and stress, could negatively affect the diversity and composition of our gut microbiota. This chapter aims to combine current knowledge to provide a comprehensive view of the interaction between microbiota and humans throughout evolution.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"111 ","pages":"149-198"},"PeriodicalIF":0.0,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141441086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Techniques, procedures, and applications in host genetic analysis. 宿主基因分析的技术、程序和应用。

4区生物学

Advances in Genetics Pub Date : 2024-01-01 Epub Date: 2024-06-01 DOI: 10.1016/bs.adgen.2024.05.001

Diego A Bonilla, Carlos A Orozco, Diego A Forero, Adrián Odriozola

{"title":"Techniques, procedures, and applications in host genetic analysis.","authors":"Diego A Bonilla, Carlos A Orozco, Diego A Forero, Adrián Odriozola","doi":"10.1016/bs.adgen.2024.05.001","DOIUrl":"10.1016/bs.adgen.2024.05.001","url":null,"abstract":"This chapter overviews genetic techniques' fundamentals and methodological features, including different approaches, analyses, and applications that have contributed to advancing health and disease. The aim is to describe laboratory methodologies and analyses employed to understand the genetic landscape of different biological contexts, from conventional techniques to cutting-edge technologies. Besides describing detailed aspects of the polymerase chain reaction (PCR) and derived types as one of the principles for many novel techniques, we also discuss microarray analysis, next-generation sequencing, and genome editing technologies such as transcription activator-like effector nucleases (TALENs) and the clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated (Cas) systems. These techniques study several phenotypes, ranging from autoimmune disorders to viral diseases. The significance of integrating diverse genetic methodologies and tools to understand host genetics comprehensively and addressing the ethical, legal, and social implications (ELSI) associated with using genetic information is highlighted. Overall, the methods, procedures, and applications in host genetic analysis provided in this chapter furnish researchers and practitioners with a roadmap for navigating the dynamic landscape of host-genome interactions.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"111 ","pages":"1-79"},"PeriodicalIF":0.0,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141441100","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Host genetics and microbiota data analysis in colorectal cancer research. 大肠癌研究中的宿主遗传学和微生物群数据分析。

4区生物学

Advances in Genetics Pub Date : 2024-01-01 Epub Date: 2024-09-27 DOI: 10.1016/bs.adgen.2024.08.007

Adriana González, Asier Fullaondo, Adrian Odriozola

{"title":"Host genetics and microbiota data analysis in colorectal cancer research.","authors":"Adriana González, Asier Fullaondo, Adrian Odriozola","doi":"10.1016/bs.adgen.2024.08.007","DOIUrl":"10.1016/bs.adgen.2024.08.007","url":null,"abstract":"Colorectal cancer (CRC) is a heterogeneous disease with a complex aetiology influenced by a myriad of genetic and environmental factors. Despite advances in CRC research, it is a major burden of disease, with the second highest incidence and third leading cause of cancer deaths worldwide. To individualise diagnosis, prognosis, and treatment of CRC, developing new strategies combining precision medicine and bioinformatic procedures is promising. Precision medicine is based on omics technologies and aims to individualise the management of CRC based on patient host genetic characteristics and microbiota. Bioinformatics is central to the application of personalised medicine because it enables the analysis of large datasets generated by these technologies. At the level of host genetics, bioinformatics allows the identification of mutations, genes, molecular pathways, biomarkers and drugs relevant to colorectal carcinogenesis. At the microbiota level, bioinformatics is fundamental to analysing microbial communities' composition and functionality and developing biomarkers and personalised microbiota-based therapies. This paper explores the host and microbiota genetic data analysis in CRC research.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"112 ","pages":"31-81"},"PeriodicalIF":0.0,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142480022","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Circadian rhythm and host genetics. 昼夜节律和宿主遗传学

4区生物学

Advances in Genetics Pub Date : 2024-01-01 Epub Date: 2024-03-06 DOI: 10.1016/bs.adgen.2024.02.001

Adrián Odriozola, Adriana González, Jesús Álvarez-Herms, Francesc Corbi

引用次数: 0

Multiple regulatory mechanisms for pH homeostasis in the gastric pathogen, Helicobacter pylori. 胃病原体幽门螺杆菌pH稳态的多种调节机制。

4区生物学

Advances in Genetics Pub Date : 2022-01-01 DOI: 10.1016/bs.adgen.2022.07.001

Xuhua Xia

引用次数: 0

RecBCD enzyme and Chi recombination hotspots as determinants of self vs. non-self: Myths and mechanisms. RecBCD酶和Chi重组热点作为自我与非自我的决定因素:神话和机制。

4区生物学

Advances in Genetics Pub Date : 2022-01-01 DOI: 10.1016/bs.adgen.2022.06.001

Suriyen Subramaniam, Gerald R Smith

{"title":"RecBCD enzyme and Chi recombination hotspots as determinants of self vs. non-self: Myths and mechanisms.","authors":"Suriyen Subramaniam, Gerald R Smith","doi":"10.1016/bs.adgen.2022.06.001","DOIUrl":"https://doi.org/10.1016/bs.adgen.2022.06.001","url":null,"abstract":"Bacteria face a challenge when DNA enters their cells by transformation, mating, or phage infection. Should they treat this DNA as an invasive foreigner and destroy it, or consider it one of their own and potentially benefit from incorporating new genes or alleles to gain useful functions? It is frequently stated that the short nucleotide sequence Chi (5' GCTGGTGG 3'), a hotspot of homologous genetic recombination recognized by Escherichia coli's RecBCD helicase-nuclease, allows E. coli to distinguish its DNA (self) from any other DNA (non-self) and to destroy non-self DNA, and that Chi is \"over-represented\" in the E. coli genome. We show here that these latter statements (dogmas) are not supported by available evidence. We note Chi's wide-spread occurrence and activity in distantly related bacterial species and phages. We illustrate multiple, highly non-random features of the genomes of E. coli and coliphage P1 that account for Chi's high frequency and genomic position, leading us to propose that P1 selects for Chi's enhancement of recombination, whereas E. coli selects for the preferred codons in Chi. We discuss other, previously described mechanisms for self vs. non-self determination involving RecBCD and for RecBCD's destruction of DNA that cannot recombine, whether foreign or domestic, with or without Chi.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"109 ","pages":"1-37"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10047805/pdf/nihms-1867765.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10139686","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

Genetic factors governing bacterial virulence and host plant susceptibility during Agrobacterium infection. 农杆菌感染过程中控制细菌毒力和寄主植物敏感性的遗传因素。

4区生物学

Advances in Genetics Pub Date : 2022-01-01 DOI: 10.1016/bs.adgen.2022.08.001

Benoit Lacroix, Vitaly Citovsky

{"title":"Genetic factors governing bacterial virulence and host plant susceptibility during Agrobacterium infection.","authors":"Benoit Lacroix, Vitaly Citovsky","doi":"10.1016/bs.adgen.2022.08.001","DOIUrl":"https://doi.org/10.1016/bs.adgen.2022.08.001","url":null,"abstract":"Several species of the Agrobacterium genus represent unique bacterial pathogens able to genetically transform plants, by transferring and integrating a segment of their own DNA (T-DNA, transferred DNA) in their host genome. Whereas in nature this process results in uncontrolled growth of the infected plant cells (tumors), this capability of Agrobacterium has been widely used as a crucial tool to generate transgenic plants, for research and biotechnology. The virulence of Agrobacterium relies on a series of virulence genes, mostly encoded on a large plasmid (Ti-plasmid, tumor inducing plasmid), involved in the different steps of the DNA transfer to the host cell genome: activation of bacterial virulence, synthesis and export of the T-DNA and its associated proteins, intracellular trafficking of the T-DNA and effector proteins in the host cell, and integration of the T-DNA in the host genomic DNA. Multiple interactions between these bacterial encoded proteins and host factors occur during the infection process, which determine the outcome of the infection. Here, we review our current knowledge of the mechanisms by which bacterial and plant factors control Agrobacterium virulence and host plant susceptibility.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"110 ","pages":"1-29"},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10241481/pdf/nihms-1843315.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9629654","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

Epigenetic regulation of angiogenesis in tumor progression. 肿瘤进展过程中血管生成的表观遗传调控。

4区生物学

Advances in Genetics Pub Date : 2022-01-01 Epub Date: 2022-09-16 DOI: 10.1016/bs.adgen.2022.08.002

Vanessa Desantis, Antonio G Solimando, Domenico Ribatti

引用次数: 0

Genomic perspectives on the circadian clock hypothesis of psychiatric disorders. 从基因组角度看精神疾病的昼夜节律假说。

4区生物学

Advances in Genetics Pub Date : 2021-01-01 Epub Date: 2020-12-07 DOI: 10.1016/bs.adgen.2020.11.005

Malcolm von Schantz, Mario A Leocadio-Miguel, Michael J McCarthy, Sergi Papiol, Dominic Landgraf

{"title":"Genomic perspectives on the circadian clock hypothesis of psychiatric disorders.","authors":"Malcolm von Schantz, Mario A Leocadio-Miguel, Michael J McCarthy, Sergi Papiol, Dominic Landgraf","doi":"10.1016/bs.adgen.2020.11.005","DOIUrl":"10.1016/bs.adgen.2020.11.005","url":null,"abstract":"Circadian rhythm disturbances are frequently described in psychiatric disorders such as major depressive disorder, bipolar disorder, and schizophrenia. Growing evidence suggests a biological connection between mental health and circadian rhythmicity, including the circadian influence on brain function and mood and the requirement for circadian entrainment by external factors, which is often impaired in mental illness. Mental (as well as physical) health is also adversely affected by circadian misalignment. The marked interindividual differences in this combined susceptibility, in addition to the phenotypic spectrum in traits related both to circadian rhythms and mental health, suggested the possibility of a shared genetic background and that circadian clock genes may also be candidate genes for psychiatric disorders. This hypothesis was further strengthened by observations in animal models where clock genes had been knocked out or mutated. The introduction of genome-wide association studies (GWAS) enabled hypothesis-free testing. GWAS analysis of chronotype confirmed the prominent role of circadian genes in these phenotypes and their extensive polygenicity. However, in GWAS on psychiatric traits, only one clock gene, ARNTL (BMAL1) was identified as one of the few loci differentiating bipolar disorder from schizophrenia, and macaque monkeys where the ARNTL gene has been knocked out display symptoms similar to schizophrenia. Another lesson from genomic analyses is that chronotype has an important genetic correlation with several psychiatric disorders and that this effect is unidirectional. We conclude that the effect of circadian disturbances on psychiatric disorders probably relates to modulation of rhythm parameters and extend beyond the core clock genes themselves.","PeriodicalId":50949,"journal":{"name":"Advances in Genetics","volume":"107 ","pages":"153-191"},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/bs.adgen.2020.11.005","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"25412365","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 7

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4区生物学

Advances in Genetics Pub Date : 2021-01-01 DOI: 10.1016/s0065-2660(21)00022-5

引用次数: 0