DOCSLIB.ORG

Monashia Flava Gen. Nov., Sp. Nov., an Actinobacterium of the Family Intrasporangiaceae

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Monashia Flava Gen. Nov., Sp. Nov., an Actinobacterium of the Family Intrasporangiaceae International Journal of Systematic and Evolutionary Microbiology (2016), 66, 554–561 DOI 10.1099/ijsem.0.000753 Monashia flava gen. nov., sp. nov., an actinobacterium of the family Intrasporangiaceae Adzzie-Shazleen Azman,1 Nurullhudda Zainal,1,2 Nurul-Syakima Ab Mutalib,3 Wai-Fong Yin,2 Kok-Gan Chan2 and Learn-Han Lee1 Correspondence 1Biomedical Research Laboratory, Jeffrey Cheah School of Medicine and Health Sciences, Learn-Han Lee Monash University Malaysia, 46150 Bandar Sunway, Selangor Darul Ehsan, Malaysia [email protected] or 2Division of Genetics and Molecular Biology, Institute of Biological Sciences, Faculty of Science, [email protected] University of Malaya, 50603 Kuala Lumpur, Malaysia 3UKM Medical Molecular Biology Institute (UMBI), UKM Medical Centre, Bandar Tun Razak, 56000 Cheras, Kuala Lumpur, Malaysia A novel actinobacterial strain, MUSC 78T, was isolated from a mangrove soil collected from Peninsular Malaysia. The taxonomic status of this strain was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis revealed that strain MUSC 78T represented a novel lineage within the class Actinobacteria. Strain MUSC 78T formed a distinct clade in the family Intrasporangiaceae and was related most closely to members of the genera Terrabacter (98.3–96.8 % 16S rRNA gene sequence similarity), Intrasporangium (98.2– 96.8 %), Humibacillus (97.2 %), Janibacter (97.0–95.3 %), Terracoccus (96.8 %), Kribbia (96.6 %), Phycicoccus (96.2–94.7 %), Knoellia (96.1–94.8 %), Tetrasphaera (96.0–94.9 %) and Lapillicoccus (95.9 %). Cells were irregular rod-shaped or cocci and stained Gram- positive. The cell-wall peptidoglycan type was A3c, with LL-diaminopimelic acid as the diagnostic diamino acid. The main cell-wall sugar was mannose and lower amounts of galactose and rhamnose were present. The predominant menaquinone was MK-8(H4). The polar lipid profile consisted of phosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, diphosphatidylglycerol and phosphoglycolipid. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0 and iso-C16 : 0.The DNA G+C content was 73.1 mol%. Based on this polyphasic study, MUSC 78T exhibited phylogenetic and phenotypic differences from members of the genera of the family Intrasporangiaceae, and therefore a novel species of a new genus, Monashia flava gen. nov., sp. nov., is proposed. The type strain of Monashia flava is MUSC 78T (5DSM 29621T5MCCC 1K00454T5NBRC 110749T). The family Intrasporangiaceae (Stackebrandt et al., 1997; Intrasporangiaceae contained 19 genera, including 16 Stackebrandt & Schumann, 2000) was redescribed by genera summarized by Zhi et al. (2009) and the recently Zhi et al. (2009) and the family contains an array of acti- described Marihabitans (Kageyama et al., 2008b), Fodini- nobacteria, in addition to the type genus Intrasporangium bacter (Wang et al., 2009) and Ornithinibacter (Xiao et al., (Kalakoutskii et al., 1967), and has MK-8(H4)orMK-8as 2011). It is possible to distinguish these genera from each the major menaquinones and LL-diaminopimelic acid (LL- other on the basis of phenotypic and genotypic character- DAP), meso-DAP or L-ornithine (L-Orn) in the cell-wall istics. The present investigation was designed to deter- peptidoglycan (Martin et al., 1997; Maszenan et al., mine the taxonomic status of a novel actinobacterial T 2000; Groth et al., 2001, 2002; Hanada et al., 2002; strain, MUSC 78 ,thatcontainedLL-DAP in the cell- Kageyama et al., 2005, 2007, 2008a, b; Jung et al., 2006; wall peptidoglycan and MK-8(H4)asthepredominant Lee & Lee, 2007). At the time of writing, the family menaquinone. To determine the taxonomic position of strain MUSC 78T, a polyphasic approach was used to Abbreviation: DAP, diaminopimelic acid. determine the phylogenetic, chemotaxonomic and pheno- typic characteristics of the novel strain. The results indi- The GenBank/EMBL/DDBJ accession number of the 16S rRNA gene T sequence of strain MUSC 78T is KF682157. cated that strain MUSC 78 represents a novel species Two supplementary figures are available with the online Supplementary of a new genus, for which the name Monashia flavus Material. gen. nov., sp. nov. is proposed. 554 000753 G 2015 IUMS Printed in Great Britain Monashia flava gen. nov., sp. nov. Strain MUSC 78T was isolated from a soil sample collected assays were determined using Biolog GenIII MicroPlates at site MUSC-TLS1 (38 489 3.20 N 1038 209 11.00 E), according to the manufacturer’s instructions (Biolog). located at the mangrove forests of the Tanjung Lumpur Biomass for molecular systematic studies and freeze-dried in the state of Pahang, Peninsular Malaysia, in December cells for chemotaxonomic studies was obtained after grow- 2012. Samples of the upper 20 cm topsoil layer (after ing in TSB at 28 8C for 5 days on a rotary shaker. Analysis removing the top 2–3 cm) were collected using an aseptic of peptidoglycan amino-acid composition and sugars was metal trowel, placed in sterile plastic bags and stored in carried out by the Identification Service of the DSMZ 220 8C. Selective pretreatment of soil samples was per- (Braunschweig, Germany). The analyses were performed formed using wet heat in sterilized water (15 min at according to published protocols (Schumann, 2011). 50 8C; Takahashi et al., 1996). Five grams of air-dried Major diagnostic sugars of strain MUSC 78T were obtained soil was mixed with 45 ml sterilized water and ground following the procedure described by Whiton et al. (1985) using a mill and then the suspension was spread onto a and analysed by TLC on cellulose plates according to Sta- selective isolation medium, starch casein agar (SCA; neck & Roberts (1974). Analysis of respiratory menaqui- Ku¨ster & Williams, 1964) supplemented with cyclohexi- 2 2 nones and polar lipids was carried out by the mide (25 mgml 1) and nystatin (10 mgml 1), and incu- Identification Service of the DSMZ. The cellular polar bated at 28 8C for 7 days. Isolate MUSC 78T was lipids were extracted and analysed by TLC (Kates, 1986). maintained on R2A agar medium at 28 8C and as glycerol Cellular fatty acid analyses of strain MUSC 78T were car- suspensions (20 %, v/v) at 220 8C. ried out by the Identification Service of the DSMZ. Cell Cultural characteristics of strain MUSC 78T were deter- mass of strain MUSC 78T was harvested from TSB after mined following growth on ISP 2 and ISP 7 media (Shirling incubation at 28 8C for 5 days. The fatty acids were & Gottlieb, 1966), SCA, Streptomyces agar (SA; Atlas 1993), extracted and prepared according to the standard protocol Actinomycetes isolation agar (AIA; Atlas 1993) and nutrient of the MIDI Microbial Identification system (Sasser, 1990). agar (MacFaddin, 2000) for 7 days at 28 8C. The ISCC-NBS Genomic DNA extractions were carried out as described by colour charts were used to determine the names and desig- Hong et al. (2009). PCR amplification of the 16S rRNA nations of colony colours (Kelly, 1964). Light microscopy gene and sequencing of the purified products were done as (80i; Nikon) and scanning electron microscopy (JEOL- described by Lee et al. (2014b). The 16S rRNA gene sequence JSM 6400) were used to observe the morphologies of strains of strain MUSC 78T was aligned with sequences of closely after incubation on R2A agar medium at 28 8C for 7 days. related type genera classified in the family Intrasporangiaceae Gram staining was done following the standard Gram reac- that had been retrieved from the GenBank/EMBL/DDBJ tion and was confirmed by using KOH lysis (Cerny, 1978). databases using CLUSTAL X software (Thompson et al., Growth was tested at 4–44 8C at intervals of 4 8C on R2A 1997). The alignment was manually verified and adjusted agar medium. NaCl tolerance was tested using trypticase prior to the reconstruction of a phylogenetic tree. Phyloge- soy broth (TSB) and salt concentrations of 0–14 % (w/v) netic trees were reconstructed using the neighbour-joining at intervals of 2 %. Growth was tested between pH 4.0 and (Saitou & Nei, 1987) and maximum-likelihood (Felsenstein, 10.0 at intervals of 1 pH unit. The production of melanoid 1981) algorithms with MEGA version 6.0 (Tamura et al., pigments and catalase activity were assessed following the 2013). Calculations of levels of sequence similarity were car- protocols described by Lee et al. (2014a). Haemolytic ried out using the EzTaxon-e server (http://eztaxon-e. activity was assessed on blood agar medium containing ezbiocloud.net/; Kim et al., 2012). The stability of the resul- 5 % (w/v) peptone, 3 % (w/v) yeast extract, 5 % (w/v) tant tree topologies was evaluated by using the bootstrap NaCl and 5 % (v/v) horse blood (Carrillo et al., 1996). resampling method of Felsenstein (1985). Evolutionary dis- Plates were examined for haemolysis after incubation at tances were computed using Kimura’s two-parameter model 32 8C for 7 days. Lipase, amylase, cellulase, chitinase, pro- (Kimura, 1980). The genomic DNA of strain MUSC 78T for tease and xylanase activities were determined by growing the determination of G+C content was extracted according cells on R2A agar medium and following the protocols to Cashion et al. (1977). The G+C content of the DNA was described by Meena et al. (2013). The presence of clear determined by HPLC (Mesbah et al., 1989). zones around colonies signifies the potential of isolates for surfactant production. Antibiotic susceptibility tests were Strain MUSC 78T formed Gram-stain-positive, non-motile, performed by the disc diffusion method as described by aerobic, non-spore-forming cocci or irregular rod-shaped Shieh et al. (2003). Antimicrobials (Oxoid) used were as fol- cells (Fig. 1). Cells formed yellowish-white-pigmented lows: ampicillin (10 mg), ampicillin sulbactam (30 mg), colonies on ISP 2 medium and AIA. Good growth was cefotaxime (30 mg), cefuroxime (30 mg), cephalosporin observed on R2A agar medium, ISP 2 medium, ISP 7 (30 mg), chloramphenicol (30 mg), ciprofloxacin (10 mg), medium, Luria–Bertani agar, nutrient agar and SA after erythromycin (15 mg), gentamicin (20 mg), nalidixic acid 7 days at 28 8C, while cells grew moderately on AIA and (30 mg), penicillin G (10 mg), streptomycin (10 mg), tetra- SCA.
Load more

Recommended publications
  • The 2014 Golden Gate National Parks Bioblitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event
    National Park Service U.S. Department of the Interior Natural Resource Stewardship and Science The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 ON THIS PAGE Photograph of BioBlitz participants conducting data entry into iNaturalist. Photograph courtesy of the National Park Service. ON THE COVER Photograph of BioBlitz participants collecting aquatic species data in the Presidio of San Francisco. Photograph courtesy of National Park Service. The 2014 Golden Gate National Parks BioBlitz - Data Management and the Event Species List Achieving a Quality Dataset from a Large Scale Event Natural Resource Report NPS/GOGA/NRR—2016/1147 Elizabeth Edson1, Michelle O’Herron1, Alison Forrestel2, Daniel George3 1Golden Gate Parks Conservancy Building 201 Fort Mason San Francisco, CA 94129 2National Park Service. Golden Gate National Recreation Area Fort Cronkhite, Bldg. 1061 Sausalito, CA 94965 3National Park Service. San Francisco Bay Area Network Inventory & Monitoring Program Manager Fort Cronkhite, Bldg. 1063 Sausalito, CA 94965 March 2016 U.S. Department of the Interior National Park Service Natural Resource Stewardship and Science Fort Collins, Colorado The National Park Service, Natural Resource Stewardship and Science office in Fort Collins, Colorado, publishes a range of reports that address natural resource topics. These reports are of interest and applicability to a broad audience in the National Park Service and others in natural resource management, including scientists, conservation and environmental constituencies, and the public. The Natural Resource Report Series is used to disseminate comprehensive information and analysis about natural resources and related topics concerning lands managed by the National Park Service.
    [Show full text]
  • Developing a Genetic Manipulation System for the Antarctic Archaeon, Halorubrum Lacusprofundi: Investigating Acetamidase Gene Function
    www.nature.com/scientificreports OPEN Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: Received: 27 May 2016 Accepted: 16 September 2016 investigating acetamidase gene Published: 06 October 2016 function Y. Liao1, T. J. Williams1, J. C. Walsh2,3, M. Ji1, A. Poljak4, P. M. G. Curmi2, I. G. Duggin3 & R. Cavicchioli1 No systems have been reported for genetic manipulation of cold-adapted Archaea. Halorubrum lacusprofundi is an important member of Deep Lake, Antarctica (~10% of the population), and is amendable to laboratory cultivation. Here we report the development of a shuttle-vector and targeted gene-knockout system for this species. To investigate the function of acetamidase/formamidase genes, a class of genes not experimentally studied in Archaea, the acetamidase gene, amd3, was disrupted. The wild-type grew on acetamide as a sole source of carbon and nitrogen, but the mutant did not. Acetamidase/formamidase genes were found to form three distinct clades within a broad distribution of Archaea and Bacteria. Genes were present within lineages characterized by aerobic growth in low nutrient environments (e.g. haloarchaea, Starkeya) but absent from lineages containing anaerobes or facultative anaerobes (e.g. methanogens, Epsilonproteobacteria) or parasites of animals and plants (e.g. Chlamydiae). While acetamide is not a well characterized natural substrate, the build-up of plastic pollutants in the environment provides a potential source of introduced acetamide. In view of the extent and pattern of distribution of acetamidase/formamidase sequences within Archaea and Bacteria, we speculate that acetamide from plastics may promote the selection of amd/fmd genes in an increasing number of environmental microorganisms.
    [Show full text]
  • 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.
    [Show full text]
  • Table S1. Bacterial Otus from 16S Rrna
    Table S1. Bacterial OTUs from 16S rRNA sequencing analysis including only taxa which were identified to genus level (those OTUs identified as Ambiguous taxa, uncultured bacteria or without genus-level identifications were omitted). OTUs with only a single representative across all samples were also omitted. Taxa are listed from most to least abundant. Pitcher Plant Sample Class Order Family Genus CB1p1 CB1p2 CB1p3 CB1p4 CB5p234 Sp3p2 Sp3p4 Sp3p5 Sp5p23 Sp9p234 sum Gammaproteobacteria Legionellales Coxiellaceae Rickettsiella 1 2 0 1 2 3 60194 497 1038 2 61740 Alphaproteobacteria Rhodospirillales Rhodospirillaceae Azospirillum 686 527 10513 485 11 3 2 7 16494 8201 36929 Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Pedobacter 455 302 873 103 16 19242 279 55 760 1077 23162 Betaproteobacteria Burkholderiales Oxalobacteraceae Duganella 9060 5734 2660 40 1357 280 117 29 129 35 19441 Gammaproteobacteria Pseudomonadales Pseudomonadaceae Pseudomonas 3336 1991 3475 1309 2819 233 1335 1666 3046 218 19428 Betaproteobacteria Burkholderiales Burkholderiaceae Paraburkholderia 0 1 0 1 16051 98 41 140 23 17 16372 Sphingobacteriia Sphingobacteriales Sphingobacteriaceae Mucilaginibacter 77 39 3123 20 2006 324 982 5764 408 21 12764 Gammaproteobacteria Pseudomonadales Moraxellaceae Alkanindiges 9 10 14 7 9632 6 79 518 1183 65 11523 Betaproteobacteria Neisseriales Neisseriaceae Aquitalea 0 0 0 0 1 1577 5715 1471 2141 177 11082 Flavobacteriia Flavobacteriales Flavobacteriaceae Flavobacterium 324 219 8432 533 24 123 7 15 111 324 10112 Alphaproteobacteria
    [Show full text]
  • Pentachlorophenol Degradation by Janibacter Sp., a New Actinobacterium Isolated from Saline Sediment of Arid Land
    Hindawi Publishing Corporation BioMed Research International Volume 2014, Article ID 296472, 9 pages http://dx.doi.org/10.1155/2014/296472 Research Article Pentachlorophenol Degradation by Janibacter sp., a New Actinobacterium Isolated from Saline Sediment of Arid Land Amel Khessairi,1,2 Imene Fhoula,1 Atef Jaouani,1 Yousra Turki,2 Ameur Cherif,3 Abdellatif Boudabous,1 Abdennaceur Hassen,2 and Hadda Ouzari1 1 UniversiteTunisElManar,Facult´ e´ des Sciences de Tunis (FST), LR03ES03 Laboratoire de Microorganisme et Biomolecules´ Actives, Campus Universitaire, 2092 Tunis, Tunisia 2 Laboratoire de Traitement et Recyclage des Eaux, Centre des Recherches et Technologie des Eaux (CERTE), Technopoleˆ Borj-Cedria,´ B.P. 273, 8020 Soliman, Tunisia 3 Universite´ de Manouba, Institut Superieur´ de Biotechnologie de Sidi Thabet, LR11ES31 Laboratoire de Biotechnologie et Valorization des Bio-Geo Resources, Biotechpole de Sidi Thabet, 2020 Ariana, Tunisia Correspondence should be addressed to Hadda Ouzari; [email protected] Received 1 May 2014; Accepted 17 August 2014; Published 17 September 2014 Academic Editor: George Tsiamis Copyright © 2014 Amel Khessairi et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Many pentachlorophenol- (PCP-) contaminated environments are characterized by low or elevated temperatures, acidic or alkaline pH, and high salt concentrations. PCP-degrading microorganisms, adapted to grow and prosper in these environments, play an important role in the biological treatment of polluted extreme habitats. A PCP-degrading bacterium was isolated and characterized from arid and saline soil in southern Tunisia and was enriched in mineral salts medium supplemented with PCP as source of carbon and energy.
    [Show full text]
  • Seed Interior Microbiome of Rice Genotypes Indigenous to Three
    Raj et al. BMC Genomics (2019) 20:924 https://doi.org/10.1186/s12864-019-6334-5 RESEARCH ARTICLE Open Access Seed interior microbiome of rice genotypes indigenous to three agroecosystems of Indo-Burma biodiversity hotspot Garima Raj1*, Mohammad Shadab1, Sujata Deka1, Manashi Das1, Jilmil Baruah1, Rupjyoti Bharali2 and Narayan C. Talukdar1* Abstract Background: Seeds of plants are a confirmation of their next generation and come associated with a unique microbia community. Vertical transmission of this microbiota signifies the importance of these organisms for a healthy seedling and thus a healthier next generation for both symbionts. Seed endophytic bacterial community composition is guided by plant genotype and many environmental factors. In north-east India, within a narrow geographical region, several indigenous rice genotypes are cultivated across broad agroecosystems having standing water in fields ranging from 0-2 m during their peak growth stage. Here we tried to trap the effect of rice genotypes and agroecosystems where they are cultivated on the rice seed microbiota. We used culturable and metagenomics approaches to explore the seed endophytic bacterial diversity of seven rice genotypes (8 replicate hills) grown across three agroecosystems. Results: From seven growth media, 16 different species of culturable EB were isolated. A predictive metabolic pathway analysis of the EB showed the presence of many plant growth promoting traits such as siroheme synthesis, nitrate reduction, phosphate acquisition, etc. Vitamin B12 biosynthesis restricted to bacteria and archaea; pathways were also detected in the EB of two landraces. Analysis of 522,134 filtered metagenomic sequencing reads obtained from seed samples (n=56) gave 4061 OTUs.
    [Show full text]
  • Diversity of Culturable Bacteria Including Pantoea in Wild Mosquito Aedes Albopictus Claire Valiente Moro, Florence-Hélène Tran, F
    Diversity of culturable bacteria including Pantoea in wild mosquito Aedes albopictus Claire Valiente Moro, Florence-Hélène Tran, F. N. Raharimalala, P. Ravelonandro, Patrick Mavingui To cite this version: Claire Valiente Moro, Florence-Hélène Tran, F. N. Raharimalala, P. Ravelonandro, Patrick Mavin- gui. Diversity of culturable bacteria including Pantoea in wild mosquito Aedes albopictus. BMC Microbiology, BioMed Central, 2013, 13 (1), pp.70. 10.1186/1471-2180-13-70. hal-02522192 HAL Id: hal-02522192 https://hal-univ-lyon1.archives-ouvertes.fr/hal-02522192 Submitted on 28 May 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Valiente Moro et al. BMC Microbiology 2013, 13:70 http://www.biomedcentral.com/1471-2180/13/70 RESEARCH ARTICLE Open Access Diversity of culturable bacteria including Pantoea in wild mosquito Aedes albopictus Claire Valiente Moro1,2*, Florence Hélène Tran1,2, Fara Nantenaina Raharimalala3,5, Pierre Ravelonandro4 and Patrick Mavingui1,2 Abstract Background: The microbiota has been shown to play an important role in the biology of insects. In recent decades, significant efforts have been made to better understand the diversity of symbiotic bacteria associated with mosquitoes and assess their influence on pathogen transmission.
    [Show full text]
  • Corynebacterium Sp.|NML98-0116
    1 Limnochorda_pilosa~GCF_001544015.1@NZ_AP014924=Bacteria-Firmicutes-Limnochordia-Limnochordales-Limnochordaceae-Limnochorda-Limnochorda_pilosa 0,9635 Ammonifex_degensii|KC4~GCF_000024605.1@NC_013385=Bacteria-Firmicutes-Clostridia-Thermoanaerobacterales-Thermoanaerobacteraceae-Ammonifex-Ammonifex_degensii 0,985 Symbiobacterium_thermophilum|IAM14863~GCF_000009905.1@NC_006177=Bacteria-Firmicutes-Clostridia-Clostridiales-Symbiobacteriaceae-Symbiobacterium-Symbiobacterium_thermophilum Varibaculum_timonense~GCF_900169515.1@NZ_LT827020=Bacteria-Actinobacteria-Actinobacteria-Actinomycetales-Actinomycetaceae-Varibaculum-Varibaculum_timonense 1 Rubrobacter_aplysinae~GCF_001029505.1@NZ_LEKH01000003=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_aplysinae 0,975 Rubrobacter_xylanophilus|DSM9941~GCF_000014185.1@NC_008148=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_xylanophilus 1 Rubrobacter_radiotolerans~GCF_000661895.1@NZ_CP007514=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_radiotolerans Actinobacteria_bacterium_rbg_16_64_13~GCA_001768675.1@MELN01000053=Bacteria-Actinobacteria-unknown_class-unknown_order-unknown_family-unknown_genus-Actinobacteria_bacterium_rbg_16_64_13 1 Actinobacteria_bacterium_13_2_20cm_68_14~GCA_001914705.1@MNDB01000040=Bacteria-Actinobacteria-unknown_class-unknown_order-unknown_family-unknown_genus-Actinobacteria_bacterium_13_2_20cm_68_14 1 0,9803 Thermoleophilum_album~GCF_900108055.1@NZ_FNWJ01000001=Bacteria-Actinobacteria-Thermoleophilia-Thermoleophilales-Thermoleophilaceae-Thermoleophilum-Thermoleophilum_album
    [Show full text]
  • Within-Arctic Horizontal Gene Transfer As a Driver of Convergent Evolution in Distantly Related 2 Microalgae
    bioRxiv preprint doi: https://doi.org/10.1101/2021.07.31.454568; this version posted August 2, 2021. 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. 1 Within-Arctic horizontal gene transfer as a driver of convergent evolution in distantly related 2 microalgae 3 Richard G. Dorrell*+1,2, Alan Kuo3*, Zoltan Füssy4, Elisabeth Richardson5,6, Asaf Salamov3, Nikola 4 Zarevski,1,2,7 Nastasia J. Freyria8, Federico M. Ibarbalz1,2,9, Jerry Jenkins3,10, Juan Jose Pierella 5 Karlusich1,2, Andrei Stecca Steindorff3, Robyn E. Edgar8, Lori Handley10, Kathleen Lail3, Anna Lipzen3, 6 Vincent Lombard11, John McFarlane5, Charlotte Nef1,2, Anna M.G. Novák Vanclová1,2, Yi Peng3, Chris 7 Plott10, Marianne Potvin8, Fabio Rocha Jimenez Vieira1,2, Kerrie Barry3, Joel B. Dacks5, Colomban de 8 Vargas2,12, Bernard Henrissat11,13, Eric Pelletier2,14, Jeremy Schmutz3,10, Patrick Wincker2,14, Chris 9 Bowler1,2, Igor V. Grigoriev3,15, and Connie Lovejoy+8 10 11 1 Institut de Biologie de l'ENS (IBENS), Département de Biologie, École Normale Supérieure, CNRS, 12 INSERM, Université PSL, 75005 Paris, France 13 2CNRS Research Federation for the study of Global Ocean Systems Ecology and Evolution, 14 FR2022/Tara Oceans GOSEE, 3 rue Michel-Ange, 75016 Paris, France 15 3 US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, 1 16 Cyclotron Road, Berkeley,
    [Show full text]
  • A Study of the Diversity and Profile for Extracellular Enzyme Production of Aerobically Cultured Bacteria in the Gut of Muraenesox Cinereus
    ISSN (Print) 1225-9918 ISSN (Online) 2287-3406 Journal of Life Science 2019 Vol. 29. No. 2. 248~255 DOI : https://doi.org/10.5352/JLS.2019.29.2.248 A Study of the Diversity and Profile for Extracellular Enzyme Production of Aerobically Cultured Bacteria in the Gut of Muraenesox cinereus Yong-Jik Lee1†, Do-Kyoung Oh2†, Hye Won Kim2, Gae-Won Nam1, Jae Hak Sohn2, Han-Seung Lee2, Kee-Sun Shin3* and Sang-Jae Lee2* 1Department of Cosmetics, Seowon University, Chung-Ju 28674, Korea 2Major in Food Biotechnology and Research Center for Extremophiles & Marine Microbiology, Silla University, Busan 46958, Korea 3Industrial Bio-materials Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 34141, Korea Received January 26, 2019 /Revised February 24, 2019 /Accepted February 27, 2019 This research confirmed the diversity and characterization of gut microorganisms isolated from the intestinal organs of Muraenesox cinereus, collected on the Samcheonpo Coast and Seocheon Coast in South Korea. To isolate strains, Marine agar medium was basically used and cultivated at 37℃ and pH7 for several days aerobically. After single colony isolation, totally 49 pure single-colonies were iso- lated and phylogenetic analysis was carried out based on the result of 16S rRNA gene DNA sequenc- ing, indicating that isolated strains were divided into 3 phyla, 13 families, 15 genera, 34 species and 49 strains. Proteobacteria phylum, the main phyletic group, comprised 83.7% with 8 families, 8 genera and 26 species of Aeromonadaceae, Pseudoalteromonadaceae, Shewanellaceae, Enterobacteriaceae, Mor- ganellaceae, Moraxellaceae, Pseudomonadaceae, and Vibrionaceae. To confirm whether isolated strain can produce industrially useful enzyme or not, amylase, lipase, and protease enzyme assays were per- formed individually, showing that 39 strains possessed at least one enzyme activity.
    [Show full text]
  • The Bacterial Communities of Sand-Like Surface Soils of the San Rafael Swell (Utah, USA) and the Desert of Maine (USA) Yang Wang
    The bacterial communities of sand-like surface soils of the San Rafael Swell (Utah, USA) and the Desert of Maine (USA) Yang Wang To cite this version: Yang Wang. The bacterial communities of sand-like surface soils of the San Rafael Swell (Utah, USA) and the Desert of Maine (USA). Agricultural sciences. Université Paris-Saclay, 2015. English. NNT : 2015SACLS120. tel-01261518 HAL Id: tel-01261518 https://tel.archives-ouvertes.fr/tel-01261518 Submitted on 25 Jan 2016 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. NNT : 2015SACLS120 THESE DE DOCTORAT DE L’UNIVERSITE PARIS-SACLAY, préparée à l’Université Paris-Sud ÉCOLE DOCTORALE N°577 Structure et Dynamique des Systèmes Vivants Spécialité de doctorat : Sciences de la Vie et de la Santé Par Mme Yang WANG The bacterial communities of sand-like surface soils of the San Rafael Swell (Utah, USA) and the Desert of Maine (USA) Thèse présentée et soutenue à Orsay, le 23 Novembre 2015 Composition du Jury : Mme. Marie-Claire Lett , Professeure, Université Strasbourg, Rapporteur Mme. Corinne Cassier-Chauvat , Directeur de Recherche, CEA, Rapporteur M. Armel Guyonvarch, Professeur, Université Paris-Sud, Président du Jury M.
    [Show full text]
  • And Diacylglycerol Lipase from Marine Member Janibacter Sp
    Int. J. Mol. Sci. 2014, 15, 10554-10566; doi:10.3390/ijms150610554 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.com/journal/ijms Article Biochemical Properties of a New Cold-Active Mono- and Diacylglycerol Lipase from Marine Member Janibacter sp. Strain HTCC2649 Dongjuan Yuan 1, Dongming Lan 1, Ruipu Xin 1, Bo Yang 2 and Yonghua Wang 1,* 1 College of Light Industry and Food Sciences, South China University of Technology, Guangzhou 510640, China; E-Mails: [email protected] (D.Y.); [email protected] (D.L.); [email protected] (R.X.) 2 School of Bioscience and Bioengineering, South China University of Technology, Guangzhou 510006, China; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel./Fax: +86-20-8711-3842. Received: 29 April 2014 / in revised form: 15 May 2014 / Accepted: 22 May 2014 / Published: 12 June 2014 Abstract: Mono- and di-acylglycerol lipase has been applied to industrial usage in oil modification for its special substrate selectivity. Until now, the reported mono- and di-acylglycerol lipases from microorganism are limited, and there is no report on the mono- and di-acylglycerol lipase from bacteria. A predicted lipase (named MAJ1) from marine Janibacter sp. strain HTCC2649 was purified and biochemical characterized. MAJ1 was clustered in the family I.7 of esterase/lipase. The optimum activity of the purified MAJ1 occurred at pH 7.0 and 30 °C. The enzyme retained 50% of the optimum activity at 5 °C, indicating that MAJ1 is a cold-active lipase.
    [Show full text]