低龄婴幼儿龋相关致龋微生物研究进展

低龄婴幼儿龋（Earlychildhoodcaries,ECC）发生、发展是由多种因素共同作用,多种微生物共同参与的复杂过程。因此、了解儿童口腔内致龋微生物的种类及其与龋病的相关关系,对预防和治疗儿童龋病有着重要意义。本研究就ECC相关致龋菌及菌斑生物膜研究进展作一综述。     

儿童口腔微生物与乳牙早期龋研究进展

乳牙早期龋（Eady Childhood Caries,Ecc）是指发生在6岁以下儿童口腔中的龋病,是WHO在全世界范围内开展有关龋病预防的首要工作。据统计我国Ecc患病率可高达60％～80％,并有随着年龄的增长而增加的趋势,严重危害着我国少年儿童的生长发育。此外Ecc可以作为恒牙龋危险的预测指标：相对乳牙无龋病的儿童,乳牙患龋病的儿童有更高的恒牙患龋病的危险。     

活性污泥微生物群落宏组学研究进展

活性污泥是全球最常用的废水生物处理人工生态系统,微生物是驱动其污染净化能力的关键。活性污泥微生物群落所有物种与基因(简称"微生物组")的研究先后经历了"显微镜观察和纯菌培养分离"(1915)、"PCR扩增-测序"(1994)和"高通量测序-宏组学分析"(2006)三个重要阶段的发展变迁。相应地,我们对活性污泥微生物组的认知经历了从最早对微型动物(如钟虫和轮虫)及其他微生物的形貌观察和纯种培养鉴定到今天对整个微生物组的全局多样性认识的飞跃。近13年来,基于高通量测序的宏组学方法被广泛应用于揭示活性污泥微生物群落组成结构和功能,我们现在充分意识到活性污泥微生物组蕴藏着大量不可培养新物种和基因多样性,驱动着各类污染物的降解与转化。目前,特异性分子标记基因的扩增子测序技术已经被广泛应用于揭示城市和工业废水处理活性污泥微生物组和典型功能种群(如硝化细菌和聚磷菌)的时空多样性和群落构建机制,进而为未来实现活性污泥微生物组功能的精准调控奠定理论基础。宏基因组学研究在群落、种群和个体基因组水平全面解析了活性污泥微生物组驱动的碳、氮、磷元素循环过程,以及有机微污染物的生物降解和转化机理。将来活性污泥微生物组学研究需要在"标准化的组学分析方法和绝对定量""高通量培养组学""高通量功能基因组学"和"多组学方法的结合及多种方法并用"4个方面取得实现精准生态基因组学所需的技术突破,以最大限度发掘活性污泥微生物组在污水处理与资源回收领域的生态学与工程学价值。     

婴幼儿呼吸道微生物群演替研究进展

摘 要：婴幼儿从出生开始正常呼吸道微生物就无时不刻地进行着演替,最终呼吸系统微生物形成动态平衡。婴幼儿时期是呼吸道微生物群演替的重要时期,也是免疫发育的关键时期,容易受外界因素的影响,这些影响因素包括分娩方式、喂养方式、抗生素、季节、疫苗接种等。研究表明婴幼儿时期的呼吸道微生物的组成和发育会影响微生物群的稳定性,从而影响呼吸道感染和过敏性疾病的发生。现对婴幼儿呼吸道微生物群演替及其影响因素,如分娩方式、喂养方式、抗生素使用、季节、疫苗接种等进行综述。     

人体皮肤微生物群落研究进展

皮肤作为人体最大的器官,上面定居着各种各样的微生物,它们大部分是无害的,甚至对人体有益。皮肤表面的生态环境因不同的表面特征和外部因素而呈现不同的格局,使得分布于皮肤上的微生物群落出现差异。分子生物学技术的发展使研究皮肤表面微生物群落的高度多样性和多变性成为可能,而且可从生态系统角度去理解和认识皮肤微生物。本文就皮肤微生物群落的主要特点、微生物群落与疾病的联系及其具体应用等方面作一综述。     

高寒生态系统微生物群落研究进展

高寒生态系统分布在高纬度或高海拔、气候寒冷的地区,包括北极苔原、高山苔原、青藏高原等.高寒生态系统对气候变化非常敏感,其土壤中储存大量的有机碳,对全球的碳平衡起关键作用.微生物是生物地球化学循环的主要驱动者,微生物群落对气候变化的响应和反馈影响生态系统的功能与稳定性.本文回顾了高寒生态系统微生物群落组成、多样性与空间分布,以及微生物群落对气候变化(增温、氮沉降、火干扰)的响应,为拓展我国高寒生态系统微生物研究提供基础.     

口腔微生物群落结构分析方法的研究进展

牙菌斑是口腔常见感染性疾病——龋病和牙周病的始动因子,主要由微生物构成。在口腔中发现的700余个种属或种系型的细菌中,有50%左右未获得培养。基于分子生物学的方法在口腔微生态和感染性疾病的病因研究中已经成为不可或缺的技术。近年来,以16S rRNA基因为基础建立的分子生物学技术正逐步广泛用于微生物群落的分析,跨越了传统的微生物培养,直接对不同生态系,包括人类口腔的微生物组成进行了研究。本文主要介绍16s rRNA基因的分子分析技术,以及它们在口腔微生物群落结构分析研究中的应用,另外还简要介绍了一些尚未应用于口腔的新技术。     

人体鼻咽部微生物群落多样性研究进展

定殖于鼻咽部的微生物与人体始终处于动态生态平衡,对于维持人体健康发挥着重要作用,也与多种上呼吸道疾病的发生发展有密切关系。鼻咽部微生物之间及其与宿主之间的相互作用是引发人体上呼吸道疾病的重要因素。微生物的培养方法与分子生物学技术的结合使人们越来越深入地了解人体鼻咽部微生物群落的组成和结构。定殖于人体鼻咽部的微生物以肺炎链球菌(Streptococcus pneumoniae)和流感嗜血杆菌(Haemophilus influenzae)等潜在致病菌为主。本文将分别从鼻咽部微生物与机体的平衡关系、鼻咽部微生物群落的研究方法以及鼻咽部微生物群落的组成及其相互关系三个方面,综述近年来鼻咽部微生物群落结构的相关研究进展,从而为指导实践提供可靠的理论依据。     

不同类型人工湿地微生物群落的研究进展

微生物是人工湿地不可缺少的成员,对湿地生态系统中物质转化、能量流动起着重要作用.本文从人工湿地微生物群落的研究方法、微生物群落结构与组成、微生物群落调节作用与环境因素的关系等方面,综述了人工湿地微生物的研究进展.各种新颖的分子生物学方法已经成为研究人工湿地的微生物多样性的有力工具,其中最常见的是变性梯度凝胶电泳(DGGE)和寡核苷酸荧光探针原位杂交(FISH);人工湿地微生物群落的调节作用主要取决于湿地的水文条件、废水的特点(包括组成成分,污染物的特点和利用性)、湿地的过滤材料或土壤类型、植物和各种环境因素;不同人工湿地类型的微生物群落组成,从多到少依次是变形菌、噬纤维菌.黄杆菌菌群、放线菌和厚壁菌.如何进一步加深对氮循环相关微生物多样性的研究,提高废水中氮的去除效率依然是未来人工湿地技术需要解决的重要问题之一.     

浓香型白酒大曲微生物群落结构研究进展

大曲通常作为发酵剂用于酿造传统中国白酒,其提供各类微生物菌系和酶系启动白酒发酵,影响白酒风味和独特风格。近年来,对大曲微生物群落结构的研究成为研究热点,研究人员对大曲微生物群落结构、基因功能和功能微生物等进行了广泛而深入的研究,对大曲微生物组成、变迁规律和功能的认识逐渐清晰。本文综述了浓香型大曲微生物群落结构分析方法、主要微生物组成、重要功能微生物和微生物溯源,为研究大曲微生物群落结构、优化大曲生产工艺和改善白酒品质提供一定的理论依据。     

Genetic sensitivity to bitter taste of 6-n Propylthiouracil: A useful diagnostic aid to detect early childhood caries in pre-school children

PURPOSE:

Genetic factor to bitter taste perception appears to be largely mediated by the TAS2R38 gene. The insensitivity to bitter compounds like 6-n-propylthiouracil (PROP) is mediated by this gene. PROP, a pharmacological drug used in treatment of Graves’ disease, proved to be useful tool in determining the genetic sensitivity levels to bitter and sweet taste. The purpose of this study is to show much simpler PROP sensitivity technique for the clinical examiner and its application as a diagnostic aid in Early Childhood Caries (ECC) detection among preschool children.

MATERIALS AND METHODS:

A total of 119 children belonging to the age group of 36 to 71 months of both sexes, were recruited from A. J. Institute of Dental Sciences, Mangalore (Karnataka). PROP sensitivity test was carried out to determine the inherent genetic ability to taste a bitter or sweet substance. This study used simpler scaling method to find out genetic sensitivity to bitter taste; one who tasted bitter as taster and one who was not able to differentiate/tasted like paper as non-taster. A questionnaire was provided to evaluate their dietary habits and caries experience was recorded. Collected data were tabulated and subjected to statistical analysis.

RESULTS:

In the total of 119 children the mean dmfs was definitely higher in non-taster children compared to tasters. The tasters had a mean dmfs value of 9.5120 (S.D. 7.0543) and non-tasters had a value of 7.7250 (S.D. 8.33147), which was statistically significant. The results suggested that there was increase in caries experience among the group of non-tasters as compared to tasters. Tasters tended to be sweet dislikers and non-tasters tended to be sweet likers. On the whole, tasters had a bad dentition as compared to non tasters.

CONCLUSION:

The PROP sensitivity test (filter paper test) proved to be a useful diagnostic tool in determining the genetic sensitivity levels of bitter taste. The knowledge of a child''s taste perception can help us in identifying the children who are at higher risk for ECC.     

Degradation of acetochlor by four microbial communities

Four microbial communities capable of degrading acetochlor, designated A, D, E, and J, were obtained from acetochlor-contaminated soil and sludge. Acetochlor at an initial concentration of 55mg/L was completely degraded by the four mixed cultures after 4 days. At 80 mg/L acetochlor, more than 99% degradation was observed with D, 84% with A and E, and 88% with J after 9 days. There are primary eight strains of bacteria in community A, three in community D, E, and J, respectively. No single isolate was able to degrade acetochlor efficiently. The acetochlor biodegradation products were identified by gas chromatography-mass spectrometry. The probable degradative pathways of acetochlor involved dechlorination, hydroxylation, deethoxymethylation, cyclization, carboxylation, and decarboxylation. Propachlor, alachlor, and metolachlor, which are also the main components of the chloroacetanilide herbicide, could be degraded by the four mixed cultures to some degree. Given the high degradation rates observed here, the four mixed cultures obtained may be useful in the degradation processes of acetochlor.     

低龄儿童龋病牙菌斑的菌群结构分析

目的通过低龄龋齿儿童与口腔健康儿童的微生物组检测,探讨低龄儿童龋病牙菌斑的菌群组成特征。方法在深圳地区招募轻度龋齿、重度龋齿及口腔健康儿童共100名,采集其牙菌斑或健康牙齿表面微生物样本,采用MiSeq测序平台进行16S V4-V5区域的高通量测序。同时,通过生物信息分析方法,对低龄龋齿儿童的牙菌斑的微生物组成的特征进行挖掘分析。结果相对口腔健康儿童,重度龋齿患儿的牙菌斑微生物多样性增加,轻度龋齿患儿则减少,但变化不显著。门水平的优势菌主要为放线菌门、变形菌门及拟杆菌门,虽有相对丰度变化但差异无统计学意义。前10位的优势菌属中,轻度及重度龋齿儿童的最高丰度优势菌属为棒状杆菌属,重度龋齿儿童与健康儿童中的棒状杆菌丰度差异有统计学意义(t=-2.195 5, P=0.028 1)。健康儿童口腔的优势菌属包含了卟啉单胞菌属,但在轻度及重度龋齿儿童的优势菌属则替换为月形单胞菌属。种水平的菌群结构分析显示,前10位的优势菌丰度变化差异无统计学意义,而低丰度的致病菌如变异链球菌(H=27.302 1, P<0.000 1)、Atopobium parvulum(H=17.418 2, P=0.000 2)、栖牙普氏菌(H=10.598 9, P=0.005 0)、唾液普氏菌(H=10.035 0, P=0.006 6)等则在重度龋齿儿童中显著富集。结论低龄龋齿儿童的牙菌斑微生物结构发生了改变,部分口腔有害菌的丰度显著增加与龋病严重程度密切相关。     

Response of benthic microbial communities to chitin enrichment: an in situ study in the deep Arctic Ocean

In situ enrichment experiments were carried out in the Arctic deep sea (Fram Strait region) to observe the response of benthic microbial communities to chitin supply. Chambers of a benthic lander were filled in July 2004 with deep-sea sediments enriched with 1.3–7.0 g m⁻² of chitin and the effects of chitin enrichment were assessed on the microbial hydrolytic activity potential, cell number and community structure after periods of 1 week and 1 year of in situ deployment. The input of chitin had no effect on microbial abundance and chitobiase activity after 7 days of incubation, whereas community structure in enriched sediments, determined by terminal restriction fragment length polymorphism analysis of 16S rRNA genes, was different from the controls. After 1 year, microbial numbers and activity significantly increased in sediments enriched with high chitin concentrations and bacterial community structure was different from that of the other treatments. The present study suggests that microbial community structure in Arctic deep-sea sediments can react quickly to sudden large chitin inputs into the sediments and that this appears to precondition subsequent enhanced growth and enzymatic activity changes. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Stability of microbial communities in goat milk during a lactation year: molecular approaches

The microbial communities in milks from one herd were evaluated during 1-year of lactation, using molecular methods to evaluate their stability and the effect of breeding conditions on their composition. The diversity of microbial communities was measured using two approaches: molecular identification by 16S and 18S rDNA sequencing of isolates from counting media (two milks), and direct identification using 16S rDNA from clone libraries (six milks). The stability of these communities was evaluated by counting on selective media and by Single Strand Conformation Polymorphism (SSCP) analysis of variable region V3 of the 16S rRNA gene and variable region V4 of the 18S rRNA gene. One hundred and eighteen milk samples taken throughout the year were analyzed. Wide diversity among bacteria and yeasts in the milk was revealed. In addition to species commonly encountered in milk, such as Lactococcus lactis, Lactococcus garvieae, Enterococcus faecalis, Lactobacillus casei, Leuconostoc mesenteroides, Staphylococcus epidermidis, Staphylococcus simulans, Staphylococcus caprae, Staphylococcus equorum, Micrococcus sp., Kocuria sp., Pantoea agglomerans and Pseudomonas putida, sequences were affiliated to other species only described in cheeses, such as Corynebacterium variabile, Arthrobacter sp., Brachybacterium paraconglomeratum, Clostridium sp. and Rothia sp. Several halophilic species atypical in milk were found, belonging to Jeotgalicoccus psychrophilus, Salinicoccus sp., Dietza maris, Exiguobacterium, Ornithinicoccus sp. and Hahella chejuensis. The yeast community was composed of Debaryomyces hansenii, Kluyveromyces lactis, Trichosporon beigelii, Rhodotorula glutinis, Rhodotorula minuta, Candida pararugosa, Candida intermedia, Candida inconspicua, Cryptococcus curvatus and Cryptococcus magnus. The analyses of microbial counts and microbial SSCP profiles both distinguished four groups of milks corresponding to four periods defined by season and feeding regime. The microbial community was stable within each period. Milks from winter were characterized by Lactococcus and Pseudomonas, those from summer by P. agglomerans and Klebsiella and those from autumn by Chryseobacterium indologenes, Acinetobacter baumanii, Staphylococcus, Corynebacteria and yeasts. However, the composition of the community can vary according to factors other than feeding. This study opens new investigation fields in the field of raw milk microbial ecology.     

土壤微生物群落抵抗力和恢复力研究进展

人类活动的不断加剧使得土壤生态系统承受着环境干扰压力。土壤微生物受到环境干扰的响应程度（抵抗力）及恢复至原来状态的能力（恢复力）决定着土壤生态系统的可持续性。梳理和总结了土壤微生物群落对环境干扰的抵抗力和恢复力方面的研究进展。首先,在介绍土壤微生物群落抵抗力和恢复力概念的基础上,阐述了通过评估微生物群落的结构和功能的变化来系统表征抵抗力和恢复力;随后,分析了最近十年（2012-2021年）有关文献,发现土壤微生物群落的结构和（或）功能在环境干扰后的恢复力总体较弱,但耕作、有机物料添加和轮作等农田管理措施下的响应趋势表现出一定的规律性;继而,从个体水平的休眠和胁迫忍耐、种群水平的生存策略、群落水平的多样性和相互作用以及生态系统水平的历史遗留效应等方面分析了土壤微生物群落抵抗力和恢复力的维持机制;最后,从功能性状、多功能性和植物-土壤微生物整体性对未来研究做出了展望,以期为构建土壤健康评价体系及预测环境干扰对土壤功能的影响提供科学依据。     

Association of polymorphisms in genes involved in enamel formation,taste preference and immune response with early childhood caries in Saudi pre-school children

Dental caries is primarily elicited by modifiable factors such as inadequate oral hygiene, poor dietary practices and deficient fluoride exposure. However, there is a growing body of evidence suggesting the profound influence of genetic factors in dental caries susceptibility. The present study aimed to evaluate the association between single nucleotide polymorphisms (SNPs) in ENAM (rs12640848), MMP20 (rs1784418), TAS2R38 (rs713598), and LTF (rs4547741) genes and early childhood caries (ECC) in Saudi preschool children. This case-control study enrolled 360 Saudi preschool children (262 with ECC and 98 caries-free). Data on environmental factors were collected through a questionnaire. However, caries experience and oral hygiene data were obtained during clinical examination. Buccal swab samples were collected for DNA extraction and SNPs were genotyped using PCR and DNA sequencing. Children with ECC were compared to caries free children (control), then they were categorized into two categories based on ECC severity as follows; non-severe ECC (NS-ECC), and severe-ECC (S-ECC). Association between the SNPs, ECC, NS-ECC, and S-ECC was reported as an odds ratio (OR) with a 95% confidence interval (CI). The majority of the children (72.8%) exhibited ECC (31.7% NS-ECC and 41.1% S-ECC) with mean dmft of 4.20 ± 4.05. Multivariate analyses of environmental factors showed that nocturnal feeding was a risk factor for ECC (P = 0.008). Poor oral hygiene was also a risk factor for both NS-ECC and S-ECC (ECC: P < 0.0001, NS-ECC: P = 0.032 and S-ECC: P < 0.0001). Univariate analysis showed that the AG genotype of rs1784418 of MMP20 gene was protective against ECC (OR = 0.532; 95% CI = 0.316–0.897, P = 0.018) and against NS-ECC (OR = 0.436; 95% CI = 0.238–0.798, P = 0.007). When environmental risk factors for ECC were included as covariates during multivariate analysis, AG variant in rs1784418 of MMP20 gene remained less frequent in NS-ECC cases compared to controls with borderline significance (OR = 0.542; 95% CI = 0.285–1.033, P = 0.063). Our findings concluded that MMP20 rs1784418 SNP might be associated with protection against ECC in Saudi preschool children.     

Resource-allocation constraint governs structure and function of microbial communities in metabolic modeling

Predictive modeling tools for assessing microbial communities are important for realizing transformative capabilities of microbiomes in agriculture, ecology, and medicine. Constraint-based community-scale metabolic modeling is unique in its potential for making mechanistic predictions regarding both the structure and function of microbial communities. However, accessing this potential requires an understanding of key physicochemical constraints, which are typically considered on a per-species basis. What is needed is a means of incorporating global constraints relevant to microbial ecology into community models. Resource-allocation constraint, which describes how limited resources should be distributed to different cellular processes, sets limits on the efficiency of metabolic and ecological processes. In this study, we investigate the implications of resource-allocation constraints in community-scale metabolic modeling through a simple mechanism-agnostic implementation of resource-allocation constraints directly at the flux level. By systematically performing single-, two-, and multi-species growth simulations, we show that resource-allocation constraints are indispensable for predicting the structure and function of microbial communities. Our findings call for a scalable workflow for implementing a mechanistic version of resource-allocation constraints to ultimately harness the full potential of community-scale metabolic modeling tools.     

Ecology-types determine physicochemical properties and microbial communities of sediments obtained along the Songhua River

Sediments and their associated microbial communities are a vital part of riverine ecosystems. In order to understand the effects of ecology-types on microbial communities in the riverine sediments, the sediments and water samples were collected from several ecology-types along the Songhua River, and characterized in several ways. We analyzed the microbial communities in the sediments using denaturing gradient gel electrophoresis (DGGE). Furthermore, we determined environmental parameters, such as organic matter, nutrients (total N and P) and particle size distribution. The results revealed that the sediments are grouped by ecology-types along the river, but not by their geographical location. Longitude, latitude and elevation were also partially correlated with microbial community composition. This study suggests that sites of similar ecology-types affect the microbial communities in a similar manner, and result in increased heterogeneity in ecological landscapes.