scholarly journals Detection of a Bacterial Group within the Phylum Chloroflexi and Reductive-Dehalogenase-Homologous Genes in Pentachlorobenzene-Dechlorinating Estuarine Sediment from the Arakawa River, Japan

2006 ◽  
Vol 21 (3) ◽  
pp. 154-162 ◽  
Author(s):  
Kyosuke Santoh ◽  
Atsushi Kouzuma ◽  
Ryoko Ishizeki ◽  
Kenichi Iwata ◽  
Minoru Shimura ◽  
...  
Keyword(s):  
Estuarine Sediment ◽  
Bacterial Group ◽  
Reductive Dehalogenase ◽  
Homologous Genes

scholarly journals High frequency of phylogenetically diverse reductive dehalogenase-homologous genes in deep subseafloor sedimentary metagenomes

2014 ◽  
Vol 5 ◽  
Author(s):  
Mikihiko Kawai ◽  
Taiki Futagami ◽  
Atsushi Toyoda ◽  
Yoshihiro Takaki ◽  
Shinro Nishi ◽  
...  
Keyword(s):  
High Frequency ◽  
Reductive Dehalogenase ◽  
Homologous Genes ◽  
Deep Subseafloor

scholarly journals Dehalogenation Activities and Distribution of Reductive Dehalogenase Homologous Genes in Marine Subsurface Sediments

2009 ◽  
Vol 75 (21) ◽  
pp. 6905-6909 ◽  
Author(s):  
Taiki Futagami ◽  
Yuki Morono ◽  
Takeshi Terada ◽  
Anna H. Kaksonen ◽  
Fumio Inagaki
Keyword(s):  
Anaerobic Respiration ◽  
Northwest Pacific ◽  
Diverse Range ◽  
Reductive Dehalogenase ◽  
Homologous Genes ◽  
Eastern Equatorial Pacific ◽  
Sediment Slurry ◽  
Subsurface Sediments ◽  
Juan De Fuca ◽  
Ridge Flank

ABSTRACT Halogenated organic compounds serve as terminal electron acceptors for anaerobic respiration in a diverse range of microorganisms. Here, we report on the widespread distribution and diversity of reductive dehalogenase homologous (rdhA) genes in marine subsurface sediments. A total of 32 putative rdhA phylotypes were detected in sediments from the southeast Pacific off Peru, the eastern equatorial Pacific, the Juan de Fuca Ridge flank off Oregon, and the northwest Pacific off Japan, collected at a maximum depth of 358 m below the seafloor. In addition, significant dehalogenation activity involving 2,4,6-tribromophenol and trichloroethene was observed in sediment slurry from the Nankai Trough Forearc Basin. These results suggest that dehalorespiration is an important energy-yielding pathway in the subseafloor microbial ecosystem.

scholarly journals Multiple Reductive-Dehalogenase-Homologous Genes Are Simultaneously Transcribed during Dechlorination by Dehalococcoides-Containing Cultures

2005 ◽  
Vol 71 (12) ◽  
pp. 8257-8264 ◽  
Author(s):  
Alison S. Waller ◽  
Rosa Krajmalnik-Brown ◽  
Frank E. Löffler ◽  
Elizabeth A. Edwards
Keyword(s):  
Vinyl Chloride ◽  
Electron Acceptor ◽  
Reductive Dechlorination ◽  
Amino Acid Identity ◽  
Degenerate Primers ◽  
Acid Identity ◽  
Reductive Dehalogenase ◽  
Homologous Genes ◽  
Differential Transcription ◽  
Transcribed Sequences

ABSTRACT Degenerate primers were used to amplify 14 distinct reductive-dehalogenase-homologous (RDH) genes from the Dehalococcoides-containing mixed culture KB1. Most of the corresponding predicted proteins were highly similar (97 to >99% amino acid identity) to previously reported Dehalococcoides reductive dehalogenases. To examine the differential transcription of these RDH genes, KB1 was split into five subcultures amended with either trichloroethene, cis-1,2-dichloroethene, vinyl chloride, 1,2-dichlorethane, or no chlorinated electron acceptor. Total RNA was extracted following the onset of reductive dechlorination, and RDH transcripts were reverse transcribed and amplified using degenerate primers. The results indicate that the transcription of RDH genes requires the presence of a chlorinated electron acceptor, and for all treatments, multiple RDH genes were simultaneously transcribed, with transcripts of two of the genes being present under all four electron-accepting conditions. Two of the transcribed sequences were highly similar to reported vinyl chloride reductase genes, namely, vcrA from Dehalococcoides sp. strain VS and bvcA from Dehalococcoides sp. strain BAV1. These findings suggest that multiple RDH genes are induced by a single chlorinated substrate and that multiple reductive dehalogenases contribute to chloroethene degradation in KB1.

scholarly journals Distribution of Dehalococcoidia in the Anaerobic Deep Water of a Remote Meromictic Crater Lake and Detection of Dehalococcoidia-Derived Reductive Dehalogenase Homologous Genes

PLoS ONE ◽  
2016 ◽  
Vol 11 (1) ◽  
pp. e0145558 ◽  
Author(s):  
Corinne Biderre-Petit ◽  
Eric Dugat-Bony ◽  
Mickaël Mege ◽  
Nicolas Parisot ◽  
Lorenz Adrian ◽  
...  
Keyword(s):  
Deep Water ◽  
Crater Lake ◽  
Reductive Dehalogenase ◽  
Homologous Genes

COASTAL AND ESTUARINE SEDIMENT DYNAMICS IN THE MEZEN BAY AND ESTUARIES MEZEN AND KULOY

2018 ◽  
Author(s):  
Н. Демиденко ◽  
N. Demidenko
Keyword(s):  
River Water ◽  
River Discharge ◽  
Sea Water ◽  
Sediment Dynamics ◽  
Estuarine Sediment ◽  
Sea Surface ◽  
Cross Sectional ◽  
Sand Waves ◽  
Tidal Estuaries ◽  
High Concentrations

In the Mezen bay and estuaries Mezen and Kuloy can be high concentrations of mud suspension there, involving the formation at times mobile suspensions and settled mud. Within estuaries the river water is mixed with the sea water by the action of tidal motions, by waves on the sea surface and by the river discharge forcing its way to the sea. Nearly all shallow tidal estuaries, where currents exceed about 1,0m s-1 and where sand is present, have sand waves. Sand waves have a variety of cross-sectional and plan forms.

Effect of Stresses on Leaf Cuticular Wax Accumulation and Its Relationship to Expression of OsGL1-Homologous Genes in Rice

2013 ◽  
Vol 38 (6) ◽  
pp. 1115-1120
Author(s):  
Ling-Yan ZHOU ◽  
Da-Gang JIANG ◽  
Jing LI ◽  
Wei-Wei CAO ◽  
Chu-Xiong ZHUANG
Keyword(s):  
Cuticular Wax ◽  
Homologous Genes

scholarly journals Identification of the specific long-noncoding RNAs involved in night-break mediated flowering retardation in Chenopodium quinoa

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Qi Wu ◽  
Yiming Luo ◽  
Xiaoyong Wu ◽  
Xue Bai ◽  
Xueling Ye ◽  
...  
Keyword(s):  
Expression Profiles ◽  
Functional Characterization ◽  
Chenopodium Quinoa ◽  
Noncoding Rnas ◽  
Long Noncoding Rnas ◽  
Rna Seq ◽  
Short Day ◽  
Homologous Genes ◽  
The Relationship ◽  
Encoding Genes

Abstract Background Night-break (NB) has been proven to repress flowering of short-day plants (SDPs). Long-noncoding RNAs (lncRNAs) play key roles in plant flowering. However, investigation of the relationship between lncRNAs and NB responses is still limited, especially in Chenopodium quinoa, an important short-day coarse cereal. Results In this study, we performed strand-specific RNA-seq of leaf samples collected from quinoa seedlings treated by SD and NB. A total of 4914 high-confidence lncRNAs were identified, out of which 91 lncRNAs showed specific responses to SD and NB. Based on the expression profiles, we identified 17 positive- and 7 negative-flowering lncRNAs. Co-expression network analysis indicated that 1653 mRNAs were the common targets of both types of flowering lncRNAs. By mapping these targets to the known flowering pathways in model plants, we found some pivotal flowering homologs, including 2 florigen encoding genes (FT (FLOWERING LOCUS T) and TSF (TWIN SISTER of FT) homologs), 3 circadian clock related genes (EARLY FLOWERING 3 (ELF3), LATE ELONGATED HYPOCOTYL (LHY) and ELONGATED HYPOCOTYL 5 (HY5) homologs), 2 photoreceptor genes (PHYTOCHROME A (PHYA) and CRYPTOCHROME1 (CRY1) homologs), 1 B-BOX type CONSTANS (CO) homolog and 1 RELATED TO ABI3/VP1 (RAV1) homolog, were specifically affected by NB and competed by the positive and negative-flowering lncRNAs. We speculated that these potential flowering lncRNAs may mediate quinoa NB responses by modifying the expression of the floral homologous genes. Conclusions Together, the findings in this study will deepen our understanding of the roles of lncRNAs in NB responses, and provide valuable information for functional characterization in future.

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