FEMS microbiology reviews最新文献

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Nuclear genome organization in fungi: from gene folding to Rabl chromosomes. 真菌核基因组组织:从基因折叠到Rabl染色体。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad021
David E Torres, Andrew T Reckard, Andrew D Klocko, Michael F Seidl
{"title":"Nuclear genome organization in fungi: from gene folding to Rabl chromosomes.","authors":"David E Torres,&nbsp;Andrew T Reckard,&nbsp;Andrew D Klocko,&nbsp;Michael F Seidl","doi":"10.1093/femsre/fuad021","DOIUrl":"https://doi.org/10.1093/femsre/fuad021","url":null,"abstract":"<p><p>Comparative genomics has recently provided unprecedented insights into the biology and evolution of the fungal lineage. In the postgenomics era, a major research interest focuses now on detailing the functions of fungal genomes, i.e. how genomic information manifests into complex phenotypes. Emerging evidence across diverse eukaryotes has revealed that the organization of DNA within the nucleus is critically important. Here, we discuss the current knowledge on the fungal genome organization, from the association of chromosomes within the nucleus to topological structures at individual genes and the genetic factors required for this hierarchical organization. Chromosome conformation capture followed by high-throughput sequencing (Hi-C) has elucidated how fungal genomes are globally organized in Rabl configuration, in which centromere or telomere bundles are associated with opposite faces of the nuclear envelope. Further, fungal genomes are regionally organized into topologically associated domain-like (TAD-like) chromatin structures. We discuss how chromatin organization impacts the proper function of DNA-templated processes across the fungal genome. Nevertheless, this view is limited to a few fungal taxa given the paucity of fungal Hi-C experiments. We advocate for exploring genome organization across diverse fungal lineages to ensure the future understanding of the impact of nuclear organization on fungal genome function.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10246852/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9743069","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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: 5
Illuminating the oral microbiome and its host interactions: animal models of disease. 阐明口腔微生物组及其宿主相互作用:疾病的动物模型。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad018
George Hajishengallis
{"title":"Illuminating the oral microbiome and its host interactions: animal models of disease.","authors":"George Hajishengallis","doi":"10.1093/femsre/fuad018","DOIUrl":"10.1093/femsre/fuad018","url":null,"abstract":"<p><p>Periodontitis and caries are driven by complex interactions between the oral microbiome and host factors, i.e. inflammation and dietary sugars, respectively. Animal models have been instrumental in our mechanistic understanding of these oral diseases, although no single model can faithfully reproduce all aspects of a given human disease. This review discusses evidence that the utility of an animal model lies in its capacity to address a specific hypothesis and, therefore, different aspects of a disease can be investigated using distinct and complementary models. As in vitro systems cannot replicate the complexity of in vivo host-microbe interactions and human research is typically correlative, model organisms-their limitations notwithstanding-remain essential in proving causality, identifying therapeutic targets, and evaluating the safety and efficacy of novel treatments. To achieve broader and deeper insights into oral disease pathogenesis, animal model-derived findings can be synthesized with data from in vitro and clinical research. In the absence of better mechanistic alternatives, dismissal of animal models on fidelity issues would impede further progress to understand and treat oral disease.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10198557/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9603830","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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: 0
The small intestine: dining table of host-microbiota meetings. 小肠:宿主-微生物群会议的餐桌。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad022
Karen Delbaere, Inez Roegiers, Auriane Bron, Claude Durif, Tom Van de Wiele, Stephanie Blanquet-Diot, Ludovica Marinelli
{"title":"The small intestine: dining table of host-microbiota meetings.","authors":"Karen Delbaere,&nbsp;Inez Roegiers,&nbsp;Auriane Bron,&nbsp;Claude Durif,&nbsp;Tom Van de Wiele,&nbsp;Stephanie Blanquet-Diot,&nbsp;Ludovica Marinelli","doi":"10.1093/femsre/fuad022","DOIUrl":"https://doi.org/10.1093/femsre/fuad022","url":null,"abstract":"<p><p>Growing evidence suggests the importance of the small intestinal bacteria in the diet-host-microbiota dialogue in various facets of health and disease. Yet, this body site is still poorly explored and its ecology and mechanisms of interaction with the host are just starting to be unraveled. In this review, we describe the current knowledge on the small intestinal ecology, its composition and diversity, and how the intestinal bacteria in homeostatic conditions participate in nutrient digestion and absorption. We illustrate the importance of a controlled bacterial density and of the preservation of absorptive surface for the host's nutritional status. In particular, we discuss these aspects of the small intestinal environment in the framework of two disease conditions, namely small intestinal bacterial overgrowth (SIBO) and short bowel syndrome (SBS). We also detail in vivo, ex vivo, and in vitro models developed to simulate the small intestinal environment, some applied for (diet-)host-bacteria interaction studies. Lastly, we highlight recent technological, medical, and scientific advances applicable to investigate this complex and yet understudied body environment to broaden our knowledge in support of further progress in the medical practice, and to proceed towards the integration of the (small)intestinal bacteria in personalized therapeutic approaches.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10246847/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9798351","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
After a century of nisin research - where are we now? 经过一个世纪的 nisin 研究--我们现在在哪里?
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad023
Des Field, Miguel Fernandez de Ullivarri, R Paul Ross, Colin Hill
{"title":"After a century of nisin research - where are we now?","authors":"Des Field, Miguel Fernandez de Ullivarri, R Paul Ross, Colin Hill","doi":"10.1093/femsre/fuad023","DOIUrl":"10.1093/femsre/fuad023","url":null,"abstract":"<p><p>It is almost a century since nisin was discovered in fermented milk cultures, coincidentally in the same year that penicillin was first described. Over the last 100 years this small, highly modified pentacyclic peptide has not only found success in the food industry as a preservative but has also served as the paradigm for our understanding of the genetic organization, expression, and regulation of genes involved in lantibiotic biosynthesis-one of the few cases of extensive post-translation modification in prokaryotes. Recent developments in understanding the complex biosynthesis of nisin have shed light on the cellular location of the modification and transport machinery and the co-ordinated series of spatio-temporal events required to produce active nisin and provide resistance and immunity. The continued unearthing of new natural variants from within human and animal gastrointestinal tracts has sparked interest in the potential application of nisin to influence the microbiome, given the growing recognition of the role the gastrointestinal microbiota plays in health and disease. Moreover, interdisciplinary approaches have taken advantage of biotechnological advancements to bioengineer nisin to produce novel variants and expand nisin functionality for applications in the biomedical field. This review will discuss the latest progress in these aspects of nisin research.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10257480/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9699418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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: 0
Engineering lanthipeptides by introducing a large variety of RiPP modifications to obtain new-to-nature bioactive peptides. 通过引入大量的RiPP修饰来获得新的天然生物活性肽。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad017
Yuxin Fu, Yanli Xu, Fleur Ruijne, Oscar P Kuipers
{"title":"Engineering lanthipeptides by introducing a large variety of RiPP modifications to obtain new-to-nature bioactive peptides.","authors":"Yuxin Fu,&nbsp;Yanli Xu,&nbsp;Fleur Ruijne,&nbsp;Oscar P Kuipers","doi":"10.1093/femsre/fuad017","DOIUrl":"https://doi.org/10.1093/femsre/fuad017","url":null,"abstract":"<p><p>Natural bioactive peptide discovery is a challenging and time-consuming process. However, advances in synthetic biology are providing promising new avenues in peptide engineering that allow for the design and production of a large variety of new-to-nature peptides with enhanced or new bioactivities, using known peptides as templates. Lanthipeptides are ribosomally synthesized and post-translationally modified peptides (RiPPs). The modularity of post-translational modification (PTM) enzymes and ribosomal biosynthesis inherent to lanthipeptides enables their engineering and screening in a high-throughput manner. The field of RiPPs research is rapidly evolving, with many novel PTMs and their associated modification enzymes being identified and characterized. The modularity presented by these diverse and promiscuous modification enzymes has made them promising tools for further in vivo engineering of lanthipeptides, allowing for the diversification of their structures and activities. In this review, we explore the diverse modifications occurring in RiPPs and discuss the potential applications and feasibility of combining various modification enzymes for lanthipeptide engineering. We highlight the prospect of lanthipeptide- and RiPP-engineering to produce and screen novel peptides, including mimics of potent non-ribosomally produced antimicrobial peptides (NRPs) such as daptomycin, vancomycin, and teixobactin, which offer high therapeutic potential.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10373908/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10243649","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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: 1
Microbiota and fungal-bacterial interactions in the cystic fibrosis lung. 囊性纤维化肺的微生物群和真菌-细菌相互作用。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad029
Eneko Santos-Fernandez, Leire Martin-Souto, Aitziber Antoran, Maialen Areitio, Leire Aparicio-Fernandez, Jean-Philippe Bouchara, Carsten Schwarz, Aitor Rementeria, Idoia Buldain, Andoni Ramirez-Garcia
{"title":"Microbiota and fungal-bacterial interactions in the cystic fibrosis lung.","authors":"Eneko Santos-Fernandez,&nbsp;Leire Martin-Souto,&nbsp;Aitziber Antoran,&nbsp;Maialen Areitio,&nbsp;Leire Aparicio-Fernandez,&nbsp;Jean-Philippe Bouchara,&nbsp;Carsten Schwarz,&nbsp;Aitor Rementeria,&nbsp;Idoia Buldain,&nbsp;Andoni Ramirez-Garcia","doi":"10.1093/femsre/fuad029","DOIUrl":"https://doi.org/10.1093/femsre/fuad029","url":null,"abstract":"<p><p>The most common genetic hereditary disease affecting Caucasians is cystic fibrosis (CF), which is caused by autosomal recessive mutations in the CFTR gene. The most serious consequence is the production of a thick and sticky mucus in the respiratory tract, which entraps airborne microorganisms and facilitates colonization, inflammation and infection. Therefore, the present article compiles the information about the microbiota and, particularly, the inter-kingdom fungal-bacterial interactions in the CF lung, the molecules involved and the potential effects that these interactions may have on the course of the disease. Among the bacterial compounds, quorum sensing-regulated molecules such as homoserine lactones, phenazines, rhamnolipids, quinolones and siderophores (pyoverdine and pyochelin) stand out, but volatile organic compounds, maltophilin and CF-related bacteriophages are also explained. These molecules exhibit diverse antifungal mechanisms, including iron starvation and induction of reactive oxygen and nitrogen species production. The fungal compounds are less studied, but they include cell wall components, siderophores, patulin and farnesol. Despite the apparent competition between microorganisms, the persistence of significant rates of bacterial-fungal co-colonization in CF suggests that numerous variables influence it. In conclusion, it is crucial to increase scientific and economic efforts to intensify studies on the bacterial-fungal inter-kingdom interactions in the CF lung.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9743562","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Bacterial extracellular electron transfer in plant and animal ecosystems. 植物和动物生态系统中的细菌胞外电子转移。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad019
Eric Stevens, Maria L Marco
{"title":"Bacterial extracellular electron transfer in plant and animal ecosystems.","authors":"Eric Stevens,&nbsp;Maria L Marco","doi":"10.1093/femsre/fuad019","DOIUrl":"https://doi.org/10.1093/femsre/fuad019","url":null,"abstract":"<p><p>Extracellular electron transfer (EET) is a bioelectrochemical process performed by electrochemically active bacteria (EAB) found in host-associated environments, including plant and animal ecosystems and fermenting plant- and animal-derived foods. Through direct or mediated electron transfer pathways, certain bacteria use EET to enhance ecological fitness with host-impacting effects. In the plant rhizosphere, electron acceptors support the growth of EAB such as Geobacter, cable bacteria, and some clostridia that can result changing iron and heavy metal uptake by plants. In animal microbiomes, EET is associated with diet-derived iron in the intestines of soil-dwelling termites, earthworms, and beetle larvae. EET is also associated with the colonization and metabolism of some bacteria in human and animal microbiomes, such as Streptococcus mutans in the mouth, Enterococcus faecalis and Listeria monocytogenes in the intestine, and Pseudomonas aeruginosa in the lungs. During the fermentation of plant tissues and bovine milk, lactic acid bacteria like Lactiplantibacillus plantarum and Lactococcus lactis may use EET to increase their growth and food acidification, as well as decrease environmental oxidation-reduction potential. Thus, EET is likely an important metabolic pathway for host-associated bacteria and has implications for ecosystem function, health and disease, and biotechnological applications.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9741748","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Targeting the nucleotide metabolism of Trypanosoma brucei and other trypanosomatids. 针对布鲁氏锥虫和其他锥虫的核苷酸代谢。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad020
Anders Hofer
{"title":"Targeting the nucleotide metabolism of Trypanosoma brucei and other trypanosomatids.","authors":"Anders Hofer","doi":"10.1093/femsre/fuad020","DOIUrl":"https://doi.org/10.1093/femsre/fuad020","url":null,"abstract":"<p><p>African sleeping sickness, Chagas disease, and leishmaniasis are life-threatening diseases that together affect millions of people around the world and are caused by different members of the protozoan family Trypanosomatidae. The most studied member of the family is Trypanosoma brucei, which is spread by tsetse flies and causes African sleeping sickness. Nucleotide metabolism in T. brucei and other trypanosomatids is significantly different from that of mammals and was recognized as a target for chemotherapy already in the 1970-1980s. A more thorough investigation of the nucleotide metabolism in recent years has paved the way for identifying nucleoside analogues that can cure T. brucei brain infections in animal models. Specific features of T. brucei nucleotide metabolism include the lack of de novo purine biosynthesis, the presence of very efficient purine transporters, the lack of salvage pathways for CTP synthesis, unique enzyme localizations, and a recently discovered novel pathway for dTTP synthesis. This review describes the nucleotide metabolism of T. brucei, highlights differences and similarities to other trypanosomatids, and discusses how to exploit the parasite-specific features for drug development.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10208901/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10101622","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Cyclic-di-AMP signalling in lactic acid bacteria. 乳酸菌中的环二- amp信号传导。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-05-19 DOI: 10.1093/femsre/fuad025
Mark S Turner, Yuwei Xiang, Zhao-Xun Liang, Esteban Marcellin, Huong Thi Pham
{"title":"Cyclic-di-AMP signalling in lactic acid bacteria.","authors":"Mark S Turner,&nbsp;Yuwei Xiang,&nbsp;Zhao-Xun Liang,&nbsp;Esteban Marcellin,&nbsp;Huong Thi Pham","doi":"10.1093/femsre/fuad025","DOIUrl":"https://doi.org/10.1093/femsre/fuad025","url":null,"abstract":"<p><p>Cyclic dimeric adenosine monophosphate (cyclic-di-AMP) is a nucleotide second messenger present in Gram-positive bacteria, Gram-negative bacteria and some Archaea. The intracellular concentration of cyclic-di-AMP is adjusted in response to environmental and cellular cues, primarily through the activities of synthesis and degradation enzymes. It performs its role by binding to protein and riboswitch receptors, many of which contribute to osmoregulation. Imbalances in cyclic-di-AMP can lead to pleiotropic phenotypes, affecting aspects such as growth, biofilm formation, virulence, and resistance to osmotic, acid, and antibiotic stressors. This review focuses on cyclic-di-AMP signalling in lactic acid bacteria (LAB) incorporating recent experimental discoveries and presenting a genomic analysis of signalling components from a variety of LAB, including those found in food, and commensal, probiotic, and pathogenic species. All LAB possess enzymes for the synthesis and degradation of cyclic-di-AMP, but are highly variable with regards to the receptors they possess. Studies in Lactococcus and Streptococcus have revealed a conserved function for cyclic-di-AMP in inhibiting the transport of potassium and glycine betaine, either through direct binding to transporters or to a transcriptional regulator. Structural analysis of several cyclic-di-AMP receptors from LAB has also provided insights into how this nucleotide exerts its influence.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10243994/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9733792","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
A guide to current methodology and usage of reverse vaccinology towards in silico vaccine discovery. 指导目前的方法和使用反向疫苗学对硅疫苗的发现。
IF 11.3 2区 生物学
FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad004
Stephen J Goodswen, Paul J Kennedy, John T Ellis
{"title":"A guide to current methodology and usage of reverse vaccinology towards in silico vaccine discovery.","authors":"Stephen J Goodswen,&nbsp;Paul J Kennedy,&nbsp;John T Ellis","doi":"10.1093/femsre/fuad004","DOIUrl":"https://doi.org/10.1093/femsre/fuad004","url":null,"abstract":"<p><p>Reverse vaccinology (RV) was described at its inception in 2000 as an in silico process that starts from the genomic sequence of the pathogen and ends with a list of potential protein and/or peptide candidates to be experimentally validated for vaccine development. Twenty-two years later, this process has evolved from a few steps entailing a handful of bioinformatics tools to a multitude of steps with a plethora of tools. Other in silico related processes with overlapping workflow steps have also emerged with terms such as subtractive proteomics, computational vaccinology, and immunoinformatics. From the perspective of a new RV practitioner, determining the appropriate workflow steps and bioinformatics tools can be a time consuming and overwhelming task, given the number of choices. This review presents the current understanding of RV and its usage in the research community as determined by a comprehensive survey of scientific papers published in the last seven years. We believe the current mainstream workflow steps and tools presented here will be a valuable guideline for all researchers wanting to apply an up-to-date in silico vaccine discovery process.</p>","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":null,"pages":null},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9121096","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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: 9
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