Your browser doesn't support javascript.
loading
Mostrar: 20 | 50 | 100
Resultados 1 - 14 de 14
Filtrar
Mais filtros

Base de dados
País/Região como assunto
Tipo de documento
Intervalo de ano de publicação
1.
Nature ; 521(7551): 208-12, 2015 May 14.
Artigo em Inglês | MEDLINE | ID: mdl-25739499

RESUMO

Over 20% of Earth's terrestrial surface is underlain by permafrost with vast stores of carbon that, once thawed, may represent the largest future transfer of carbon from the biosphere to the atmosphere. This process is largely dependent on microbial responses, but we know little about microbial activity in intact, let alone in thawing, permafrost. Molecular approaches have recently revealed the identities and functional gene composition of microorganisms in some permafrost soils and a rapid shift in functional gene composition during short-term thaw experiments. However, the fate of permafrost carbon depends on climatic, hydrological and microbial responses to thaw at decadal scales. Here we use the combination of several molecular 'omics' approaches to determine the phylogenetic composition of the microbial communities, including several draft genomes of novel species, their functional potential and activity in soils representing different states of thaw: intact permafrost, seasonally thawed active layer and thermokarst bog. The multi-omics strategy reveals a good correlation of process rates to omics data for dominant processes, such as methanogenesis in the bog, as well as novel survival strategies for potentially active microbes in permafrost.


Assuntos
Genoma Bacteriano/genética , Metagenoma/genética , Microbiota/fisiologia , Pergelissolo/microbiologia , Microbiologia do Solo , Áreas Alagadas , Alaska , Atmosfera/química , Ciclo do Carbono , Clima , Desnitrificação , Congelamento , Ferro/metabolismo , Metano/metabolismo , Microbiota/genética , Nitratos/metabolismo , Nitrogênio/metabolismo , Oxirredução , Filogenia , Estações do Ano , Enxofre/metabolismo , Fatores de Tempo
2.
Nucleic Acids Res ; 43(14): 6761-71, 2015 Aug 18.
Artigo em Inglês | MEDLINE | ID: mdl-26150420

RESUMO

Increased sequencing of microbial genomes has revealed that prevailing prokaryotic species assignments can be inconsistent with whole genome information for a significant number of species. The long-standing need for a systematic and scalable species assignment technique can be met by the genome-wide Average Nucleotide Identity (gANI) metric, which is widely acknowledged as a robust measure of genomic relatedness. In this work, we demonstrate that the combination of gANI and the alignment fraction (AF) between two genomes accurately reflects their genomic relatedness. We introduce an efficient implementation of AF,gANI and discuss its successful application to 86.5M genome pairs between 13,151 prokaryotic genomes assigned to 3032 species. Subsequently, by comparing the genome clusters obtained from complete linkage clustering of these pairs to existing taxonomy, we observed that nearly 18% of all prokaryotic species suffer from anomalies in species definition. Our results can be used to explore central questions such as whether microorganisms form a continuum of genetic diversity or distinct species represented by distinct genetic signatures. We propose that this precise and objective AF,gANI-based species definition: the MiSI (Microbial Species Identifier) method, be used to address previous inconsistencies in species classification and as the primary guide for new taxonomic species assignment, supplemented by the traditional polyphasic approach, as required.


Assuntos
Archaea/classificação , Bactérias/classificação , Genoma Arqueal , Genoma Bacteriano , Genômica/métodos , Algoritmos , Archaea/genética , Bactérias/genética , Classificação/métodos , Análise por Conglomerados , Listeria monocytogenes/classificação , Listeria monocytogenes/genética , Filogenia
3.
Genome Announc ; 4(4)2016 Aug 04.
Artigo em Inglês | MEDLINE | ID: mdl-27491980

RESUMO

Here, we report the first genome sequence of a Nocardia plant endophyte, N. casuarinae strain BMG51109, isolated from Casuarina glauca root nodules. The improved high-quality draft genome sequence contains 8,787,999 bp with a 68.90% GC content and 7,307 predicted protein-coding genes.

4.
Genome Announc ; 4(4)2016 Aug 04.
Artigo em Inglês | MEDLINE | ID: mdl-27491997

RESUMO

Nocardia sp. strain BMG111209 is a non-Frankia actinobacterium isolated from root nodules of Casuarina glauca in Tunisia. Here, we report the 9.1-Mbp draft genome sequence of Nocardia sp. strain BMG111209 with a G + C content of 69.19% and 8,122 candidate protein-encoding genes.

5.
Genome Announc ; 3(4)2015 Aug 06.
Artigo em Inglês | MEDLINE | ID: mdl-26251504

RESUMO

Frankia sp. strain DC12, isolated from root nodules of Datisca cannabina, is a member of the fourth lineage of Frankia, which is unable to reinfect actinorhizal plants. Here, we report its 6.88-Mbp high-quality draft genome sequence, with a G+C content of 71.92% and 5,858 candidate protein-coding genes.

6.
Genome Announc ; 1(2): e0023912, 2013 Mar 14.
Artigo em Inglês | MEDLINE | ID: mdl-23516234

RESUMO

Serratia sp. strain FGI 94 was isolated from a fungus garden of the leaf-cutter ant Atta colombica. Analysis of its 4.86-Mbp chromosome will help advance our knowledge of symbiotic interactions and plant biomass degradation in this ancient ant-fungus mutualism.

7.
Genome Announc ; 1(1)2013 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-23469353

RESUMO

The Enterobacteriaceae bacterium strain FGI 57 was isolated from a fungus garden of the leaf-cutter ant Atta colombica. Analysis of its single 4.76-Mbp chromosome will shed light on community dynamics and plant biomass degradation in ant fungus gardens.

8.
Genome Announc ; 1(4)2013 Jul 05.
Artigo em Inglês | MEDLINE | ID: mdl-23833133

RESUMO

We announce the availability of the genome sequence of Streptomyces viridosporus strain T7A ATCC 39115, a plant biomass-degrading actinomycete. This bacterium is of special interest because of its capacity to degrade lignin, an underutilized component of plants in the context of bioenergy. It has a full complement of genes for plant biomass catabolism.

9.
Stand Genomic Sci ; 9(2): 325-33, 2013 Dec 20.
Artigo em Inglês | MEDLINE | ID: mdl-24976889

RESUMO

Ensifer (syn. Sinorhizobium) meliloti is an important symbiotic bacterial species that fixes nitrogen. Strains BO21CC and AK58 were previously investigated for their substrate utilization and their plant-growth promoting abilities showing interesting features. Here, we describe the complete genome sequence and annotation of these strains. BO21CC and AK58 genomes are 6,985,065 and 6,974,333 bp long with 6,746 and 6,992 genes predicted, respectively.

10.
Stand Genomic Sci ; 9(2): 359-69, 2013 Dec 20.
Artigo em Inglês | MEDLINE | ID: mdl-24976892

RESUMO

Enterobacter sp. IIT-BT 08 belongs to Phylum: Proteobacteria, Class: Gammaproteobacteria, Order: Enterobacteriales, Family: Enterobacteriaceae. The organism was isolated from the leaves of a local plant near the Kharagpur railway station, Kharagpur, West Bengal, India. It has been extensively studied for fermentative hydrogen production because of its high hydrogen yield. For further enhancement of hydrogen production by strain development, complete genome sequence analysis was carried out. Sequence analysis revealed that the genome was linear, 4.67 Mbp long and had a GC content of 56.01%. The genome properties encode 4,393 protein-coding and 179 RNA genes. Additionally, a putative pathway of hydrogen production was suggested based on the presence of formate hydrogen lyase complex and other related genes identified in the genome. Thus, in the present study we describe the specific properties of the organism and the generation, annotation and analysis of its genome sequence as well as discuss the putative pathway of hydrogen production by this organism.

11.
Genome Announc ; 1(2): e0008513, 2013 Mar 14.
Artigo em Inglês | MEDLINE | ID: mdl-23516212

RESUMO

We report here the genome sequence of Frankia sp. strain CN3, which was isolated from Coriaria nepalensis. This genome sequence is the first from the fourth lineage of Frankia, strains of which are unable to reinfect actinorhizal plants. At 10 Mb, it represents the largest Frankia genome sequenced to date.

12.
13.
Genome Announc ; 1(4)2013 Jul 11.
Artigo em Inglês | MEDLINE | ID: mdl-23846272

RESUMO

Members of the actinomycete genus Frankia form a nitrogen-fixing symbiosis with 8 different families of actinorhizal plants. We report a draft genome sequence for Frankia sp. strain BMG5.12, a nitrogen-fixing actinobacterium isolated from Tunisian soils with the ability to infect Elaeagnus angustifolia and Myrica gale.

SELEÇÃO DE REFERÊNCIAS
DETALHE DA PESQUISA