Archaeal communities in the sediments of three contrasting mangroves

Dias, Armando Cavalcante Franco; Dini‐Andreote, Francisco; Taketani, Rodrigo Gouvêa; Tsai, Siu Mui; Azevedo, João Lúcio; Melo, I. S. de; Andreote, Fernando Dini

doi:10.1007/s11368-011-0423-7

Cited by 55 publications

(50 citation statements)

References 29 publications

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“…Mangroves offer very particular conditions to their inhabitants (mixed influences from marine and terrestrial environments) and hence can be seen as reservoirs for such genetic and ecological novelty. Similar findings are described in the literature, where specific clusters were composed of sequences retrieved from mangroves sediments for the gene dsrB (37) and archaeal amoA (10).…”

Section: Discussionsupporting

confidence: 86%

Abundance and Genetic Diversity of nifH Gene Sequences in Anthropogenically Affected Brazilian Mangrove Sediments

Dias

Silva

Cotta³

et al. 2012

Appl Environ Microbiol

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Although mangroves represent ecosystems of global importance, the genetic diversity and abundance of functional genes that are key to their functioning scarcely have been explored. Here, we present a survey based on the nifH gene across transects of sediments of two mangrove systems located along the coast line of São Paulo state (Brazil) which differed by degree of disturbance, i.e., an oil-spill-affected and an unaffected mangrove. The diazotrophic communities were assessed by denaturing gradient gel electrophoresis (DGGE), quantitative PCR (qPCR), and clone libraries. The nifH gene abundance was similar across the two mangrove sediment systems, as evidenced by qPCR. However, the nifH-based PCR-DGGE profiles revealed clear differences between the mangroves. Moreover, shifts in the nifH gene diversities were noted along the land-sea transect within the previously oiled mangrove. The nifH gene diversity depicted the presence of nitrogen-fixing bacteria affiliated with a wide range of taxa, encompassing members of the Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, Firmicutes, and also a group of anaerobic sulfate-reducing bacteria. We also detected a unique mangrove-specific cluster of sequences denoted Mgv-nifH. Our results indicate that nitrogen-fixing bacterial guilds can be partially endemic to mangroves, and these communities are modulated by oil contamination, which has important implications for conservation strategies.

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Section: Discussionsupporting

confidence: 86%

Abundance and Genetic Diversity of nifH Gene Sequences in Anthropogenically Affected Brazilian Mangrove Sediments

Dias

Silva

Cotta³

et al. 2012

Appl Environ Microbiol

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“…In previous researches, Crenarchaeota and Euryarchaeota were always detected with high abundance in mangrove sediment ecosystems (Yan et al 2006;Mendes et al 2012;Pires et al 2012;Chen et al 2013;Silveira et al 2013;Otero et al 2014), and low abundance of Thaumarchaeota was found in some studies (Mendes et al 2012;Pires et al 2012;Silveira et al 2013;Otero et al 2014). One study in three mangrove sediments under different stages of preservation reported Archaea groups of Thaumarchaeota (53.21 %), Euryarchaeota (29.6 %), and unclassified Archaea (16.1 %), but no Crenarchaeota (Dias et al 2011); another study from mangrove sediment of Sundarbans revealed the dominance of Euryarchaeota and Thaumarchaeota (Bhattacharyya et al 2015), which was consistent with Dias et al (2011). In terms of the abundance of Crenarchaeota and Euryarchaeota, our result in the K. candel, L. racemosa, S. apetala, and B. gymnoihiza stands was in agreement with some researches that Euryarchaeota had a greater abundance than Crenarchaeota in mangrove sediment ecosystems (Mendes et al 2012;Chen et al 2013) (Fig.…”

Section: Discussionmentioning

confidence: 99%

Archaeal communities in the sediments of different mangrove stands at Dongzhaigang, China

Guan

Chen

et al. 2016

J Soils Sediments

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Purpose Knowledge of archaeal communities is essential for understanding of the mechanism of carbon and nitrogen cycle in the mangrove sediment ecosystem. Presently, little is known about archaeal communities in the Dongzhaigang mangrove sediments. This study aimed to characterize the archaeal communities in sediments of different mangrove stands and to find out the correlations between archaeal communities and the environmental factors of sediments.Materials and methods Sediment samples were collected from the Dongzhaigang mangrove forest for analysis of soil properties and archaeal communities, by national standard methods and Illumina Miseq archaeal 16S ribosomal RNA (rRNA) gene sequencing, respectively. Results and discussion The archaeal community in the Dongzhaigang mangrove forest was constituted by some phyla from BTACK^and BDPANN^supergroups, and dominated by Euryarchaeota. Among sediments of the four mangroves in Dongzhaigang, principal coordinates analysis (PCoA) scatter plot showed a trend of difference in the archaeal community structure in the Bruguiera gymnoihiza and Kandelia candel stands from that in the Laguncularia racemosa and Sonneratia apetala stands. The abundance of the order Methanosarcinales was the highest in the sediments of K. candel mangroves, whereas the order of Methanobacteriales dominated in B. gymnoihiza sediments. The highest richness and diversity values of Archaea occurred in K. candel sediments, while the lowest in B. gymnoihiza. Pearson correlation showed the significant relationships between sediment properties and some dominant genera, with a positive and significant correlation between sediment properties and genus Methanobacterium, coinciding with the maximum values of sediment properties and abundance of Methanobacterium in the sediment of B. gymnoihiza. Such results indicated that the difference of archaeal community structure among mangrove sediments may be caused by the different sediment characteristics. Methanogenic communities in the Dongzhaigang mangrove forest sediments were, at the order level, constituted by Methanobacteriales, Methanomicrobiales, Methanosarcinales, and Methanomassiliicoccales. Conclusions The investigation indicated that the Dongzhaigang mangrove sediment ecosystems support (2016( ) 16:1995( -2004( DOI 10.1007( /s11368-016-1427 diverse archaeal communities and methanogenic communities, and that there was a general trend of difference in the archaeal community structure in the B. gymnoihiza and K. candel mangrove sediments from that in the L. racemosa and S. apetala sediments. Such difference may be caused by the difference in sediment characteristics.

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“…Dentro da Mata Atlântica, diversos ecossistemas podem ocorrer, dentre os quais estão os manguezais, cujas comunidades microbianas vêrm sendo amplamente descritas em estudos que revelam sua taxonomia (DIAS et al, 2010;DIAS et al, 2011;FASANELLA et al, 2012;SANTOS et al, 2011a) e funcionalidade (GOMES et al, 2008;DIAS et al, 2012;VARON-LOPEZ et al, 2014 …”

Section: Biologia Do Solounclassified

“…A primeira imagem que surge ao pensarmos sobre os organismos presentes em solos No Brasil, alguns estudos mostraram que membros dos domínios Bacteria e Archaea estão presentes em abundância e parecem ter importante função na ciclagem de nutrientes e outros processos relacionados à manutenção da capacidade produtiva dos solos desse ecossistema (CURY, 2006;DIAS et al, 2010;DIAS et al, 2011).…”

Section: Ii2 Biologia Dos Solos De Manguezaisunclassified

“…De maneira geral, as análises por meio de comparação dos perfis de bandas, nas análises de PCR-DGGE, dos genes relacionados a funções especificas, revelaram a diferenciação destas comunidades de acordo com o histórico de preservação dos manguezais (Figura II.7). A única exceção está na análise do gene amoA de arquéias, a qual mostrou-se muito similar em todos os manguezais estudados (DIAS et al, 2011). A baixa distinção para os perfis de bandas obtidos, bem como o pequeno número de bandas presentes nesta análise, podem estar relacionados com a baixa aerobiose nos solos de manguezais, o que limita a ocorrência do processo de oxidação da amônia.…”

Section: Ii31 Descrição Da Diversidade Microbiana Em Solos De Mangunclassified

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Estrutura e função do microbioma de solos brasileiros

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Abril -2014Meio Ambiente, e por ter se mostrado uma das pessoas mais dedicadas ao trabalho com quem já convivi; Aos componentes atuais e já egressos de nosso grupo, por terem durante nosso convívio absorvido algo que tínhamos a ensinar, e por terem deixado parte de sua experiência conosco: Ademir Durrer, André S. Paula, Armando C.F. Dias, Cristiane C. Fasanella, Cristiane Toledo, Danice M. Luvizotto, Daniela Veja, Danielle Santos, Diogo P. Costa, Dorotéia A. Ferreira, Emiliana M. Romagnoli, Fábio L. Soares Jr., Filipe Salvetti, Joelma Marcon, Joshua A. Halsey, Julia E. Lima, Juliana E. Araújo, Luana L. Cadete, Lucas D. Lopes, Marcus Venícius M. Lourenço, Maryeimy V. Lopez, Mayra Costa, Mylenne C ................................................................................................................. 19 1. REVISÃO BIBLIOGRÁFICA ....................................................................................... .................................................................................................. 105 REFERÊNCIAS BIBLIOGRÁFICAS ...................................................................................... 107 ANEXOS ........................................................................................................................ ....................................................................................... .... 141 13 APRESENTAÇÃOEste manuscrito tem o objetivo de transcorrer a experiência científica do candidato, sendo esta desenvolvida ao longo de sua trajetória como pesquisador, oficialmente iniciada no pós-doutoramento, e complementada com seus quatro anos de docência na Universidade de São Paulo.A decisão sobre a forma de apresentação deste documento foi tomada após uma série de reflexões e discussões com colegas que compõem o grupo de pesquisa. O primeiro desafio foi decidir entre a escolha de uma das áreas de atuação ou a apresentação de toda a obra elaborada até o presente momento. Assim sendo, foi desenvolvida uma estrutura de texto que visa dar clareza ao leitor, de forma que o mesmo possa se situar ao ponto explorado pelo candidato.Este documento está estruturado com uma parte inicial, onde são abordados itens e assuntos comuns a todas as linhas de atuação do candidato (Resumo, Abstract, Introdução e Revisão Bibliográfica), e posteriormente são apresentadas três outras sessões, onde os temas específicos são abordados separadamente, expondo mais detalhes sobre os biomas estudados, e destacando a contribuição do candidato nos temas Microbioma de Solos de Biomas Naturais (Sessão I), Microbioma de Solos de Manguezais (Sessão II) e Microbioma de Solos Cultivados com Cana-de-açúcar (Sessão III). Esta divisão se dá para contemplar os trabalhos desenvolvidos, sendo que dentro de biomas naturais duas sessões foram geradas para dar o devido destaque ao estudo da microbiota de solos de manguezais. O texto está organizado de forma simplificada, com poucos detalhes experimentais, os quais são supridos nas referências citadas (resumos em anexo).O desejo é to...

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Archaeal communities in the sediments of three contrasting mangroves

Cited by 55 publications

References 29 publications

Abundance and Genetic Diversity of nifH Gene Sequences in Anthropogenically Affected Brazilian Mangrove Sediments

Abundance and Genetic Diversity of nifH Gene Sequences in Anthropogenically Affected Brazilian Mangrove Sediments

Archaeal communities in the sediments of different mangrove stands at Dongzhaigang, China

Estrutura e função do microbioma de solos brasileiros

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