FEMS microbiology reviews最新文献_第4页

Evolution and emergence of Mycobacterium tuberculosis. 结核分枝杆菌的进化和出现。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2024-03-01 DOI: 10.1093/femsre/fuae006

Mickael Orgeur, Camille Sous, Jan Madacki, Roland Brosch

{"title":"Evolution and emergence of Mycobacterium tuberculosis.","authors":"Mickael Orgeur, Camille Sous, Jan Madacki, Roland Brosch","doi":"10.1093/femsre/fuae006","DOIUrl":"10.1093/femsre/fuae006","url":null,"abstract":"Tuberculosis (TB) remains one of the deadliest infectious diseases in human history, prevailing even in the 21st century. The causative agents of TB are represented by a group of closely related bacteria belonging to the Mycobacterium tuberculosis complex (MTBC), which can be subdivided into several lineages of human- and animal-adapted strains, thought to have shared a last common ancestor emerged by clonal expansion from a pool of recombinogenic Mycobacterium canettii-like tubercle bacilli. A better understanding of how MTBC populations evolved from less virulent mycobacteria may allow for discovering improved TB control strategies and future epidemiologic trends. In this review, we highlight new insights into the evolution of mycobacteria at the genus level, describing different milestones in the evolution of mycobacteria, with a focus on the genomic events that have likely enabled the emergence and the dominance of the MTBC. We also review the recent literature describing the various MTBC lineages and highlight their particularities and differences with a focus on host preferences and geographic distribution. Finally, we discuss on putative mechanisms driving the evolution of tubercle bacilli and mycobacteria in general, by taking the mycobacteria-specific distributive conjugal transfer as an example.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":10.1,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10906988/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139746508","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

Towards a rational approach to promoter engineering: understanding the complexity of transcription initiation in prokaryotes. 启动子工程的合理方法：了解原核生物转录启动的复杂性。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-03-01 DOI: 10.1093/femsre/fuae004

Cara Deal, Lien De Wannemaeker, Marjan De Mey

{"title":"Towards a rational approach to promoter engineering: understanding the complexity of transcription initiation in prokaryotes.","authors":"Cara Deal, Lien De Wannemaeker, Marjan De Mey","doi":"10.1093/femsre/fuae004","DOIUrl":"10.1093/femsre/fuae004","url":null,"abstract":"Promoter sequences are important genetic control elements. Through their interaction with RNA polymerase they determine transcription strength and specificity, thereby regulating the first step in gene expression. Consequently, they can be targeted as elements to control predictability and tuneability of a genetic circuit, which is essential in applications such as the development of robust microbial cell factories. This review considers the promoter elements implicated in the three stages of transcription initiation, detailing the complex interplay of sequence-specific interactions that are involved, and highlighting that DNA sequence features beyond the core promoter elements work in a combinatorial manner to determine transcriptional strength. In particular, we emphasize that, aside from promoter recognition, transcription initiation is also defined by the kinetics of open complex formation and promoter escape, which are also known to be highly sequence specific. Significantly, we focus on how insights into these interactions can be manipulated to lay the foundation for a more rational approach to promoter engineering.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10911233/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139930741","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

Radioactive waste microbiology: predicting microbial survival and activity in changing extreme environments. 放射性废物微生物学：预测微生物在不断变化的极端环境中的生存和活动。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuae001

Simon P Gregory, Jessica R M Mackie, Megan J Barnett

{"title":"Radioactive waste microbiology: predicting microbial survival and activity in changing extreme environments.","authors":"Simon P Gregory, Jessica R M Mackie, Megan J Barnett","doi":"10.1093/femsre/fuae001","DOIUrl":"10.1093/femsre/fuae001","url":null,"abstract":"The potential for microbial activity to occur within the engineered barrier system (EBS) of a geological disposal facility (GDF) for radioactive waste is acknowledged by waste management organizations as it could affect many aspects of the safety functions of a GDF. Microorganisms within an EBS will be exposed to changing temperature, pH, radiation, salinity, saturation, and availability of nutrient and energy sources, which can limit microbial survival and activity. Some of the limiting conditions are incorporated into GDF designs for safety reasons, including the high pH of cementitious repositories, the limited pore space of bentonite-based repositories, or the high salinity of GDFs in evaporitic geologies. Other environmental conditions such as elevated radiation, temperature, and desiccation, arise as a result of the presence of high heat generating waste (HHGW). Here, we present a comprehensive review of how environmental conditions in the EBS may limit microbial activity, covering HHGW and lower heat generating waste (LHGW) in a range of geological environments. We present data from the literature on the currently recognized limits to life for each of the environmental conditions described above, and nutrient availability to establish the potential for life in these environments. Using examples where each variable has been modelled for a particular GDF, we outline the times and locations when that variable can be expected to limit microbial activity. Finally, we show how this information for multiple variables can be used to improve our understanding of the potential for microbial activity to occur within the EBS of a GDF and, more broadly, to understand microbial life in changing environments exposed to multiple extreme conditions.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10853057/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139432373","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

Cross-talk between immunity and behavior: insights from entomopathogenic fungi and their insect hosts. 免疫与行为之间的相互影响：昆虫病原真菌及其昆虫宿主的启示。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuae003

Wei Zhang, Xuanyu Chen, Ioannis Eleftherianos, Amr Mohamed, Ashley Bastin, Nemat O Keyhani

{"title":"Cross-talk between immunity and behavior: insights from entomopathogenic fungi and their insect hosts.","authors":"Wei Zhang, Xuanyu Chen, Ioannis Eleftherianos, Amr Mohamed, Ashley Bastin, Nemat O Keyhani","doi":"10.1093/femsre/fuae003","DOIUrl":"10.1093/femsre/fuae003","url":null,"abstract":"Insects are one of the most successful animals in nature, and entomopathogenic fungi play a significant role in the natural epizootic control of insect populations in many ecosystems. The interaction between insects and entomopathogenic fungi has continuously coevolved over hundreds of millions of years. Many components of the insect innate immune responses against fungal infection are conserved across phyla. Additionally, behavioral responses, which include avoidance, grooming, and/or modulation of body temperature, have been recognized as important mechanisms for opposing fungal pathogens. In an effort to investigate possible cross-talk and mediating mechanisms between these fundamental biological processes, recent studies have integrated and/or explored immune and behavioral responses. Current information indicates that during discrete stages of fungal infection, several insect behavioral and immune responses are altered simultaneously, suggesting important connections between the two systems. This review synthesizes recent advances in our understanding of the physiological and molecular aspects influencing cross-talk between behavioral and innate immune antifungal reactions, including chemical perception and olfactory pathways.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10883697/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139716000","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 role of human extracellular matrix proteins in defining Staphylococcus aureus biofilm infections. 人类细胞外基质蛋白在确定金黄色葡萄球菌生物膜感染中的作用。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuae002

Mohini Bhattacharya, Alexander R Horswill

{"title":"The role of human extracellular matrix proteins in defining Staphylococcus aureus biofilm infections.","authors":"Mohini Bhattacharya, Alexander R Horswill","doi":"10.1093/femsre/fuae002","DOIUrl":"10.1093/femsre/fuae002","url":null,"abstract":"Twenty to forty one percent of the world's population is either transiently or permanently colonized by the Gram-positive bacterium, Staphylococcus aureus. In 2017, the CDC designated methicillin-resistant S. aureus (MRSA) as a serious threat, reporting ∼300 000 cases of MRSA-associated hospitalizations annually, resulting in over 19 000 deaths, surpassing that of HIV in the USA. S. aureus is a proficient biofilm-forming organism that rapidly acquires resistance to antibiotics, most commonly methicillin (MRSA). This review focuses on a large group of (>30) S. aureus adhesins, either surface-associated or secreted that are designed to specifically bind to 15 or more of the proteins that form key components of the human extracellular matrix (hECM). Importantly, this includes hECM proteins that are pivotal to the homeostasis of almost every tissue environment [collagen (skin), proteoglycans (lung), hemoglobin (blood), elastin, laminin, fibrinogen, fibronectin, and fibrin (multiple organs)]. These adhesins offer S. aureus the potential to establish an infection in every sterile tissue niche. These infections often endure repeated immune onslaught, developing into chronic, biofilm-associated conditions that are tolerant to ∼1000 times the clinically prescribed dose of antibiotics. Depending on the infection and the immune response, this allows S. aureus to seamlessly transition from colonizer to pathogen by subtly manipulating the host against itself while providing the time and stealth that it requires to establish and persist as a biofilm. This is a comprehensive discussion of the interaction between S. aureus biofilms and the hECM. We provide particular focus on the role of these interactions in pathogenesis and, consequently, the clinical implications for the prevention and treatment of S. aureus biofilm infections.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10873506/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139711862","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

Connecting the dots: key insights on ParB for chromosome segregation from single-molecule studies. 连点成线：从单分子研究中了解 ParB 在染色体分离中的关键作用。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuad067

Miloš Tišma, Jovana Kaljević, Stephan Gruber, Tung B K Le, Cees Dekker

{"title":"Connecting the dots: key insights on ParB for chromosome segregation from single-molecule studies.","authors":"Miloš Tišma, Jovana Kaljević, Stephan Gruber, Tung B K Le, Cees Dekker","doi":"10.1093/femsre/fuad067","DOIUrl":"10.1093/femsre/fuad067","url":null,"abstract":"Bacterial cells require DNA segregation machinery to properly distribute a genome to both daughter cells upon division. The most common system involved in chromosome and plasmid segregation in bacteria is the ParABS system. A core protein of this system - partition protein B (ParB) - regulates chromosome organization and chromosome segregation during the bacterial cell cycle. Over the past decades, research has greatly advanced our knowledge of the ParABS system. However, many intricate details of the mechanism of ParB proteins were only recently uncovered using in vitro single-molecule techniques. These approaches allowed the exploration of ParB proteins in precisely controlled environments, free from the complexities of the cellular milieu. This review covers the early developments of this field but emphasizes recent advances in our knowledge of the mechanistic understanding of ParB proteins as revealed by in vitro single-molecule methods. Furthermore, we provide an outlook on future endeavors in investigating ParB, ParB-like proteins, and their interaction partners.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":11.3,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10786196/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139032156","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

Processing of stalled replication forks in Bacillus subtilis. 枯草芽孢杆菌中停滞复制叉的处理。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuad065

Begoña Carrasco, Rubén Torres, María Moreno-Del Álamo, Cristina Ramos, Silvia Ayora, Juan C Alonso

{"title":"Processing of stalled replication forks in Bacillus subtilis.","authors":"Begoña Carrasco, Rubén Torres, María Moreno-Del Álamo, Cristina Ramos, Silvia Ayora, Juan C Alonso","doi":"10.1093/femsre/fuad065","DOIUrl":"10.1093/femsre/fuad065","url":null,"abstract":"Accurate DNA replication and transcription elongation are crucial for preventing the accumulation of unreplicated DNA and genomic instability. Cells have evolved multiple mechanisms to deal with impaired replication fork progression, challenged by both intrinsic and extrinsic impediments. The bacterium Bacillus subtilis, which adopts multiple forms of differentiation and development, serves as an excellent model system for studying the pathways required to cope with replication stress to preserve genomic stability. This review focuses on the genetics, single molecule choreography, and biochemical properties of the proteins that act to circumvent the replicative arrest allowing the resumption of DNA synthesis. The RecA recombinase, its mediators (RecO, RecR, and RadA/Sms) and modulators (RecF, RecX, RarA, RecU, RecD2, and PcrA), repair licensing (DisA), fork remodelers (RuvAB, RecG, RecD2, RadA/Sms, and PriA), Holliday junction resolvase (RecU), nucleases (RnhC and DinG), and translesion synthesis DNA polymerases (PolY1 and PolY2) are key functions required to overcome a replication stress, provided that the fork does not collapse.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":10.1,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10804225/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138487032","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

Exploitation of microbial activities at low pH to enhance planetary health. 利用微生物在低pH下的活动来增强地球健康。

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuad062

Merve Atasoy, Avelino Álvarez Ordóñez, Adam Cenian, Aleksandra Djukić-Vuković, Peter A Lund, Fatih Ozogul, Janja Trček, Carmit Ziv, Daniela De Biase

{"title":"Exploitation of microbial activities at low pH to enhance planetary health.","authors":"Merve Atasoy, Avelino Álvarez Ordóñez, Adam Cenian, Aleksandra Djukić-Vuković, Peter A Lund, Fatih Ozogul, Janja Trček, Carmit Ziv, Daniela De Biase","doi":"10.1093/femsre/fuad062","DOIUrl":"10.1093/femsre/fuad062","url":null,"abstract":"Awareness is growing that human health cannot be considered in isolation but is inextricably woven with the health of the environment in which we live. It is, however, under-recognized that the sustainability of human activities strongly relies on preserving the equilibrium of the microbial communities living in/on/around us. Microbial metabolic activities are instrumental for production, functionalization, processing, and preservation of food. For circular economy, microbial metabolism would be exploited to produce building blocks for the chemical industry, to achieve effective crop protection, agri-food waste revalorization, or biofuel production, as well as in bioremediation and bioaugmentation of contaminated areas. Low pH is undoubtedly a key physical-chemical parameter that needs to be considered for exploiting the powerful microbial metabolic arsenal. Deviation from optimal pH conditions has profound effects on shaping the microbial communities responsible for carrying out essential processes. Furthermore, novel strategies to combat contaminations and infections by pathogens rely on microbial-derived acidic molecules that suppress/inhibit their growth. Herein, we present the state-of-the-art of the knowledge on the impact of acidic pH in many applied areas and how this knowledge can guide us to use the immense arsenal of microbial metabolic activities for their more impactful exploitation in a Planetary Health perspective.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":" ","pages":""},"PeriodicalIF":10.1,"publicationDate":"2024-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10963064/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138176007","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

Anelloviruses versus human immunity: how do we control these viruses? 阿奈洛韦病毒与人类免疫力：我们该如何控制这些病毒？

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2024-01-12 DOI: 10.1093/femsre/fuae005

Anne L Timmerman, Antonia L M Schönert, Lia van der Hoek

引用次数: 0

Root colonization by beneficial rhizobacteria 有益根瘤菌在根部定殖

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-12-14 DOI: 10.1093/femsre/fuad066

Yunpeng Liu, Zhihui Xu, Lin Chen, Weibing Xun, Xia Shu, Yu Chen, Xinli Sun, Zhengqi Wang, Yi Ren, Qirong Shen, Ruifu Zhang

引用次数: 0