Evaluation of Bacterial Diversity During
Total Page:16
File Type:pdf, Size:1020Kb

Load more
Recommended publications
-
Diversity, Knowledge, and Valuation of Plants Used As Fermentation Starters
He et al. Journal of Ethnobiology and Ethnomedicine (2019) 15:20 https://doi.org/10.1186/s13002-019-0299-y RESEARCH Open Access Diversity, knowledge, and valuation of plants used as fermentation starters for traditional glutinous rice wine by Dong communities in Southeast Guizhou, China Jianwu He1,2,3, Ruifei Zhang1,2, Qiyi Lei4, Gongxi Chen3, Kegang Li3, Selena Ahmed5 and Chunlin Long1,2,6* Abstract Background: Beverages prepared by fermenting plants have a long history of use for medicinal, social, and ritualistic purposes around the world. Socio-linguistic groups throughout China have traditionally used plants as fermentation starters (or koji) for brewing traditional rice wine. The objective of this study was to evaluate traditional knowledge, diversity, and values regarding plants used as starters for brewing glutinous rice wine in the Dong communities in the Guizhou Province of China, an area of rich biological and cultural diversity. Methods: Semi-structured interviews were administered for collecting ethnobotanical data on plants used as starters for brewing glutinous rice wine in Dong communities. Field work was carried out in three communities in Guizhou Province from September 2017 to July 2018. A total of 217 informants were interviewed from the villages. Results: A total of 60 plant species were identified to be used as starters for brewing glutinous rice wine, belonging to 58 genera in 36 families. Asteraceae and Rosaceae are the most represented botanical families for use as a fermentation starter for rice wine with 6 species respectively, followed by Lamiaceae (4 species); Asparagaceae, Menispermaceae, and Polygonaceae (3 species respectively); and Lardizabalaceae, Leguminosae, Moraceae, Poaceae, and Rubiaceae (2 species, respectively). -
Metabolomics-Guided Discovery and Characterization of Five New Cyclic
Justus-Liebig-Universität Gießen Department 08 - Biology & Chemistry Dissertation Metabolomics-Guided Discovery and Characterization of five n ew Cyclic Lipopeptides from Freshwater Isolate Pseudomonas sp. Michael MARNER Gießen, March 2020 1 st examiner: PD Dr. Jens Glaeser 2 nd examiner: Prof. Dr. Peter Hammann I Contents 1 Abstract1 2 Introduction2 2.1 Antibiotic Resistance . .2 2.2 Natural product research and Metabolomics . .3 3 Developement and Evaluation of a Metabolomics platform6 3.1 Introduction . .6 3.2 Material and Methods . 12 3.2.1 Cultivation of bacteria . 12 3.2.2 Extract preparation . 13 3.2.3 Bioactivity assessment . 14 3.2.4 Analytics . 15 3.2.5 Data bucketing and visualization . 16 3.2.6 Variable dereplication via molecular networking . 16 3.3 Results . 18 3.3.1 Bioactivity . 18 3.3.2 Chemical diversity assessment and automatic annotation . 19 3.3.3 Molecular networking and variable dereplication . 25 3.3.4 Linking bioactivity to causative agent . 30 3.4 Discussion . 38 3.4.1 Metabolomics . 38 3.4.2 Bioactivity . 41 4 Bioprospecting and characterization of the bacterial community of Lake Stechlin 44 4.1 Intoduction . 44 4.2 Material and Methods . 45 4.2.1 Sampling of microorganisms from Lake Stechlin . 45 4.2.2 Sample preparation . 46 4.2.3 Cell enumeration via fluorescence microscopy . 47 4.2.4 Microbiome analysis . 47 4.2.5 Cultivation and conservation . 49 4.2.6 Bioactivity assessment via quick supernatant lux assay . 49 4.2.7 Phylogenetic identification based on 16S rRNA gene se- quencing . 50 4.3 Results . -
Kaistella Soli Sp. Nov., Isolated from Oil-Contaminated Soil
A001 Kaistella soli sp. nov., Isolated from Oil-contaminated Soil Dhiraj Kumar Chaudhary1, Ram Hari Dahal2, Dong-Uk Kim3, and Yongseok Hong1* 1Department of Environmental Engineering, Korea University Sejong Campus, 2Department of Microbiology, School of Medicine, Kyungpook National University, 3Department of Biological Science, College of Science and Engineering, Sangji University A light yellow-colored, rod-shaped bacterial strain DKR-2T was isolated from oil-contaminated experimental soil. The strain was Gram-stain-negative, catalase and oxidase positive, and grew at temperature 10–35°C, at pH 6.0– 9.0, and at 0–1.5% (w/v) NaCl concentration. The phylogenetic analysis and 16S rRNA gene sequence analysis suggested that the strain DKR-2T was affiliated to the genus Kaistella, with the closest species being Kaistella haifensis H38T (97.6% sequence similarity). The chemotaxonomic profiles revealed the presence of phosphatidylethanolamine as the principal polar lipids;iso-C15:0, antiso-C15:0, and summed feature 9 (iso-C17:1 9c and/or C16:0 10-methyl) as the main fatty acids; and menaquinone-6 as a major menaquinone. The DNA G + C content was 39.5%. In addition, the average nucleotide identity (ANIu) and in silico DNA–DNA hybridization (dDDH) relatedness values between strain DKR-2T and phylogenically closest members were below the threshold values for species delineation. The polyphasic taxonomic features illustrated in this study clearly implied that strain DKR-2T represents a novel species in the genus Kaistella, for which the name Kaistella soli sp. nov. is proposed with the type strain DKR-2T (= KACC 22070T = NBRC 114725T). [This study was supported by Creative Challenge Research Foundation Support Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (NRF- 2020R1I1A1A01071920).] A002 Chitinibacter bivalviorum sp. -
Ecological and Ontogenetic Components of Larval Lake
MICROBIAL ECOLOGY crossm Ecological and Ontogenetic Components of Larval Lake Downloaded from Sturgeon Gut Microbiota Assembly, Successional Dynamics, and Ecological Evaluation of Neutral Community Processes Shairah Abdul Razak,a,b Kim T. Scribnera,c http://aem.asm.org/ aDepartment of Fisheries & Wildlife, Michigan State University, East Lansing, Michigan, USA bCenter for Frontier Sciences, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, Malaysia cDepartment of Integrative Biology, Michigan State University, East Lansing, Michigan, USA Shairah Abdul Razak and Kim T. Scribner contributed equally to this article. Author order was determined based on the workload associated with data analysis and writing of the paper. ABSTRACT Gastrointestinal (GI) or gut microbiotas play essential roles in host de- velopment and physiology. These roles are influenced partly by the microbial com- munity composition. During early developmental stages, the ecological processes on September 1, 2020 at MICHIGAN STATE UNIVERSITY underlying the assembly and successional changes in host GI community composi- tion are influenced by numerous factors, including dispersal from the surrounding environment, age-dependent changes in the gut environment, and changes in di- etary regimes. However, the relative importance of these factors to the gut microbi- ota is not well understood. We examined the effects of environmental (diet and wa- ter sources) and host early ontogenetic development on the diversity of and the compositional changes in the gut microbiota of a primitive teleost fish, the lake stur- geon (Acipenser fulvescens), based on massively parallel sequencing of the 16S rRNA gene. Fish larvae were raised in environments that differed in water source (stream versus filtered groundwater) and diet (supplemented versus nonsupplemented Ar- temia fish). -
The Gut Microbiome and Aquatic Toxicology: an Emerging Concept For
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Aquila Digital Community The University of Southern Mississippi The Aquila Digital Community Faculty Publications 11-1-2018 The utG Microbiome and Aquatic Toxicology: An Emerging Concept for Environmental Health Ondrej Adamovsky University of Florida Amanda Buerger University of Florida Alexis M. Wormington University of Florida Naomi Ector University of Florida Robert J. Griffitt University of Southern Mississippi, [email protected] See next page for additional authors Follow this and additional works at: https://aquila.usm.edu/fac_pubs Part of the Marine Biology Commons Recommended Citation Adamovsky, O., Buerger, A., Wormington, A. M., Ector, N., Griffitt, R. J., Bisesi, J. H., Martyniuk, C. J. (2018). The utG Microbiome and Aquatic Toxicology: An Emerging Concept for Environmental Health. Environmental Toxicology and Chemistry, 37(11), 2758-2775. Available at: https://aquila.usm.edu/fac_pubs/15447 This Article is brought to you for free and open access by The Aquila Digital Community. It has been accepted for inclusion in Faculty Publications by an authorized administrator of The Aquila Digital Community. For more information, please contact [email protected]. Authors Ondrej Adamovsky, Amanda Buerger, Alexis M. Wormington, Naomi Ector, Robert J. Griffitt, Joseph H. Bisesi Jr., and Christopher J. Martyniuk This article is available at The Aquila Digital Community: https://aquila.usm.edu/fac_pubs/15447 Invited Critical Review The gut microbiome and aquatic toxicology: An emerging concept for environmental health Ondrej Adamovsky, Amanda Buerger, Alexis M. Wormington, Naomi Ector, Robert J. Griffitt, Joseph H. Bisesi Jr, Christopher J. -
Production and Analysis of Volatile Flavor Compounds in Sweet Fermented Rice (Khao Mak)
MATEC Web of Conferences 192, 03044 (2018) https://doi.org/10.1051/matecconf/201819203044 ICEAST 2018 Production and analysis of volatile flavor compounds in sweet fermented rice (Khao Mak) Jittimon Wongsa1,*, Vilai Rungsardthong2, and Tamaki Yasutomo3 1Department of Agricultural Engineering for Industry, Faculty of Industrial Technology and Management, King Mongkut's University of Technology North Bangkok Prachinburi Campus, Prachinburi, Thailand 2Department of Agro-Industrial, Food and Environmental Technology, Faculty of Applied Science, Food and Agro-Industry Research Center, King Mongkut’s University of Technology North Bangkok, Bangkok, Thailand 3Department of Bioresource Technology, National Institute of Technology, Okinawa National College of Technology, Okinawa, Japan Abstract. Khao Mak is a sweet fermented rice-based dessert with a unique flavor profile commonly found throughout Thailand. The traditional starter culture (Look Pang) contains yeast, mold and herbs, which is used to ferment cooked glutinous rice. This research studied production of Khao Mak which resulted in volatile flavor compounds that were affected by rice varieties, including white glutinous rice (Kor Khor 6), Japanese rice (Hitomebore) and black glutinous rice (Kam Doi and Leum Phua). Total soluble solids (TSS) as degree Brix, pH, and alcohol concentrations were measured daily during the fermentation period. Volatile flavor compounds were separated and identified by gas chromatography mass spectrometry (GC-MS). At the end of the fermentation, samples had pH ranging from 3.91±0.16 to 4.30±0.09, total soluble solids of 32.65±1.65 to 44.02±1.72qBrix, and alcohol concentrations between 0.33±0.03 and 0.38±0.03% (v/v). The potent odors associated with Khao Mak were alcohol, wine-like, whiskey-like, solvent-like, sweet and fruity. -
Prospects for Food Fermentation in South-East Asia, Topics from the Tropical Fermentation and Biotechnology Network at the End of the Asifood Erasmus+Project
fmicb-09-02278 October 11, 2018 Time: 15:28 # 1 PERSPECTIVE published: 15 October 2018 doi: 10.3389/fmicb.2018.02278 Prospects for Food Fermentation in South-East Asia, Topics From the Tropical Fermentation and Biotechnology Network at the End of the AsiFood Erasmus+Project Edited by: Yves Waché1,2,3*, Thuy-Le Do4, Thi-Bao-Hoa Do5, Thi-Yen Do6,7, Maxime Haure1,2,3,8, Qingli Dong, Phu-Ha Ho6,7, Anil Kumar Anal9, Van-Viet-Man Le10, Wen-Jun Li11, Hélène Licandro1,2,3, University of Shanghai for Science Da Lorn1,2,3,12, Mai-Huong Ly-Chatain13, Sokny Ly12, Warapa Mahakarnchanakul14, and Technology, China Dinh-Vuong Mai1,2,3,6,7, Hasika Mith12, Dzung-Hoang Nguyen10, Thi-Kim-Chi Nguyen1,2,3, Reviewed by: Thi-Minh-Tu Nguyen6,7, Thi-Thanh-Thuy Nguyen15, Thi-Viet-Anh Nguyen4, Digvijay Verma, Hai-Vu Pham3,16, Tuan-Anh Pham6,7, Thanh-Tam Phan6,7, Reasmey Tan12, Babasaheb Bhimrao Ambedkar Tien-Nam Tien17, Thierry Tran3,18,19, Sophal Try1,2,3,12, Quyet-Tien Phi20, University, India Dominique Valentin3,21, Quoc-Bao Vo-Van22, Kitiya Vongkamjan23, Duc-Chien Vu4, Carmen Wacher, Nguyen-Thanh Vu4 and Son Chu-Ky6,7* Universidad Nacional Autónoma de México, Mexico 1 Tropical Bioresources & Biotechnology International Joint Laboratory, Université Bourgogne Franche-Comté/AgroSup 2 *Correspondence: Dijon- Hanoi University of Science and Technology, Dijon, France, PAM UMR A 02.102, Université Bourgogne 3 4 Yves Waché Franche-Comté/AgroSup Dijon, Dijon, France, Agreenium, Paris, France, Food Industries Research Institute, Hanoi, 5 6 [email protected] Vietnam, -
High Quality Development Path of Chinese Sauce-Flavor Baijiu Industry—Analysis Based on Consumption Data
E3S Web of Conferences 251, 01099 (2021) https://doi.org/10.1051/e3sconf/202125101099 TEES 2021 High quality development path of Chinese sauce-flavor Baijiu industry—Analysis based on consumption data Cong Peng1,*, and Xu Guo1 1 School of Economics and Finance, Guizhou University of Commerce, Guiyang, Guizhou, China, 550014 Abstract:As an important part of Baijiu industry in China, Chinese sauce-flavor Baijiu is sought after by the consumer market for its unique taste. However, in recent years, there are still many challenges in the process of industrial development. Based on the analysis of three characteristics of Chinese sauce- flavor Baijiu market and the internal and external environments of industrial development, the internal and external factors of high quality and sustainable development of Chinese sauce-flavor Baijiu industry were discussed from three aspects - concentrated development, green development and diversified development. profits and taxes, the sauce-flavor Baijiu industry has made steady development[1]. In 2019, with the 1 Introduction production of 400,000 kilo-litre (about 5.1% of total Baijiu brewing in China has a long time history dated China’s production), the such type of enterprises back to ancient times. In the course of evolution, kinds accomplished the production value of 134.1 billion yuan, of brewing technology have been created and a unique 2% of the total China’s Baijiu industry value, among liquor culture was formed. The custom of raising a cup which the sauce-flavor Baijiu enterprises of Guizhou of liquor has rooted in Chinese culture for hundreds of province produced 80% of the total China’s amount, years. -
Antagonistic Interactions and Biofilm Forming Capabilities Among Bacterial Strains Isolated from the Egg Surfaces of Lake Sturgeon (Acipenser Fulvescens)
Microb Ecol (2018) 75:22–37 DOI 10.1007/s00248-017-1013-z MICROBIOLOGY OF AQUATIC SYSTEMS Antagonistic Interactions and Biofilm Forming Capabilities Among Bacterial Strains Isolated from the Egg Surfaces of Lake Sturgeon (Acipenser fulvescens) M. Fujimoto1 & B. Lovett1 & R. Angoshtari1 & P. Nirenberg 1 & T. P. Loch 2 & K. T. Scribner3,4 & T. L. Marsh1 Received: 3 November 2016 /Accepted: 8 June 2017 /Published online: 3 July 2017 # Springer Science+Business Media, LLC 2017 Abstract Characterization of interactions within a host- well-characterized isolates but enhanced biofilm formation associated microbiome can help elucidate the mechanisms of of a fish pathogen. Our results revealed the complex nature microbial community formation on hosts and can be used to of interactions among members of an egg associated microbial identify potential probiotics that protect hosts from pathogens. community yet underscored the potential of specific microbial Microbes employ various modes of antagonism when populations as host probiotics. interacting with other members of the community. The forma- tion of biofilm by some strains can be a defense against anti- Keywords Microbiome . Antagonism . Antibiotic . Biofilm microbial compounds produced by other taxa. We character- ized the magnitude of antagonistic interactions and biofilm formation of 25 phylogenetically diverse taxa that are repre- Introduction sentative of isolates obtained from egg surfaces of the threat- ened fish species lake sturgeon (Acipenser fulvescens)attwo Microbiologists have known for decades that intricate ecolog- ecologically relevant temperature regimes. Eight isolates ex- ical linkages exist between a host and the hosted microbial hibited aggression to at least one other isolate. Pseudomonas community [e.g., 1, 2]. -
A New Symbiotic Lineage Related to Neisseria and Snodgrassella Arises from the Dynamic and Diverse Microbiomes in Sucking Lice
bioRxiv preprint doi: https://doi.org/10.1101/867275; this version posted December 6, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. A new symbiotic lineage related to Neisseria and Snodgrassella arises from the dynamic and diverse microbiomes in sucking lice Jana Říhová1, Giampiero Batani1, Sonia M. Rodríguez-Ruano1, Jana Martinů1,2, Eva Nováková1,2 and Václav Hypša1,2 1 Department of Parasitology, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic 2 Institute of Parasitology, Biology Centre, ASCR, v.v.i., České Budějovice, Czech Republic Author for correspondence: Václav Hypša, Department of Parasitology, University of South Bohemia, České Budějovice, Czech Republic, +42 387 776 276, [email protected] Abstract Phylogenetic diversity of symbiotic bacteria in sucking lice suggests that lice have experienced a complex history of symbiont acquisition, loss, and replacement during their evolution. By combining metagenomics and amplicon screening across several populations of two louse genera (Polyplax and Hoplopleura) we describe a novel louse symbiont lineage related to Neisseria and Snodgrassella, and show its' independent origin within dynamic lice microbiomes. While the genomes of these symbionts are highly similar in both lice genera, their respective distributions and status within lice microbiomes indicate that they have different functions and history. In Hoplopleura acanthopus, the Neisseria-related bacterium is a dominant obligate symbiont universally present across several host’s populations, and seems to be replacing a presumably older and more degenerated obligate symbiont. -
Variations of the Intestinal Gut Microbiota of Farmed Rainbow Trout, Oncorhynchus Mykiss (Walbaum), Depending on the Infection Status of the Fish"
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by IRTA Pubpro This is the peer reviewed version of the following article: Parshukov, A.N., E.N. Kashinskaya, E.P. Simonov, O.V. Hlunov, G.I. Izvekova, K.B. Andree, and M.M. Solovyev. 2019. "Variations Of The Intestinal Gut Microbiota Of Farmed Rainbow Trout, Oncorhynchus Mykiss (Walbaum), Depending On The Infection Status Of The Fish". Journal Of Applied Microbiology. Wiley. doi:10.1111/jam.14302., which has been published in final form at https://doi.org/10.1111/jam.14302. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Use of Self-Archived Versions http://www.wileyauthors.com/self- archiving. DR. ALEKSEY PARSHUKOV (Orcid ID : 0000-0001-9917-186X) MISS ELENA KASHINSKAYA (Orcid ID : 0000-0001-8097-2333) Article type : - Original Article Variations of the intestinal gut microbiota of farmed rainbow trout, Oncorhynchus mykiss (Walbaum), depending on the infection status of the fish Article A.N. Parshukov1*¥, E.N. Kashinskaya2¥, E.P. Simonov2,3¥, O.V. Hlunov4, G.I. Izvekova5, K.B. Andree6, M.M. Solovyev2,7** 1Institute of Biology of the Karelian Research Centre of the Russian Academy of Sciences, Petrozavodsk, Russia 2Institute of Systematics and Ecology of Animals, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia 3Laboratory for Genomic Research and Biotechnology, Krasnoyarsk Science Center of the Siberian Branch of the Russian Academy of Sciences, Krasnoyarsk, Russia 4LLC “FishForel”, Lahdenpohja, Karelia, Russia 5Papanin Institute for Biology of Inland Waters, Russian Academy of Sciences, Borok, Nekouzskii raion, Yaroslavl oblast, Russia 6IRTA-SCR, San Carlos de la Rapita, Tarragona, Spain 7Tomsk State University, Tomsk, Russia This article has been accepted for publication and undergone full peer review but has not Accepted been through the copyediting, typesetting, pagination and proofreading process, which may lead to differences between this version and the Version of Record. -
Backpacking in Remote Guizhou China Wedding in Hongkong
Backpacking in remote Guizhou China ---------- Wedding in Hongkong 17th September - Gulou (Drum Tower) 29th October 2007 Large size map is in photo gallery - www.xelliant.ch Background Again we had not planned this trip, but Peggy wished to see her family and school friends at AhPo’s Hongkong-wedding (after UK-wedding in Spring). Asked to join, I pushed to combine this with a completion of our China trip in 2005, when we had not ‘finished’ with beautiful and ‘backward’ Guizhou! Goals and Strategy · To spend a few weeks at low speed in beautiful Guizhou – Walking to feel what you see! · To take things as they happen and do what is possible with very little or no advance information! · Take minimum luggage and equipment to survive using 2 small backpacks only! · To enjoy and (sometimes:-) endure travelling, sleeping, eating at local standard in order to perceive the country and its charms and flavours also through the skin! · Travel in daytime only to enjoy the views! · Avoid tourist traps where possible. · In Hongkong: See as much of the family as possible and otherwise casually enjoy Hongkong! Results As usually, it took a couple of days to get into the Chinese routine, but then the excitement and enjoyment continued to increase until we rated this China trip as our most enjoyable experience so far! Lasting Impressions · Walking and walking through the generally charming and fertile countryside, encountering friendly and helpful people (almost) everywhere. · Being able to enjoy and even cherish rudimentary local standards (sleeping, eating, buses). · To see all these different minority groups and even experience how they live! The Gulou’s- 鼓楼 (drum towers) and the Wind and Rain Bridges of the Dong minority gave a strong symbolic character.