ISOLATION AND IDENTIFICATION OF 3-CHLOROPROPIONIC ACID DEGRADING BACTERIUM FROM MARINE SPONGE

2015 ◽  
Vol 77 (25) ◽  
Author(s):  
Nurul Hanani Mohd Sufian ◽  
Mohd Azrul Naim ◽  
Tengku Haziyamin Tengku Abdul Hamid ◽  
Fahrul Huyop ◽  
Azzmer Azzar Abdul Hamid
Keyword(s):  
Marine Sponge ◽  
Chloride Ion ◽  
Rrna Gene ◽  
Active Components ◽  
Ion Release ◽  
Isolation And Identification ◽  
16S Rrna Gene Analysis ◽  
Bacteria Growth ◽  
Degrading Bacterium ◽  
Degrading Bacteria

Synthetic haloalkanoic acids often applied as active components in herbicides are toxic to the environment and harmful to the living organisms. These compounds are widely released to the environment due to their routine use by agricultural activities.  In recent years, accumulation of haloalkanoic acids was emerged in marine environment. In this study, a 3CP-degrading bacterium which designated as strain H4 was successfully isolated from marine sponge Gelliodes sp. that capable of degrading 3CP as the sole carbon and energy source. The bacteria growth on solid minimal media containing 3CP was the evident for the presence of dehalogenase enzyme. In liquid medium, the doubling time of the cells for strain H4 was 56.82 ± 0.1 h while the maximum chloride ion release was 2.03 ± 0.01 mM. The 16S rDNA sequence of strain H4 was obtained via 16s rRNA gene analysis (1000 bp) and it was closely related to Bacillus aryabhattai B8W22 (99% similarity). To the best of knowledge, this report is the first report detailing haloalkanoic acid degrading bacteria from marine sponge in coastal area of Malaysia.

scholarly journals Isolation and Identification of Sodium Fluoroacetate Degrading Bacteria from Caprine Rumen in Brazil

2012 ◽  
Vol 2012 ◽  
pp. 1-6 ◽  
Author(s):  
Expedito K. A. Camboim ◽  
Arthur P. Almeida ◽  
Michelle Z. Tadra-Sfeir ◽  
Felício G. Junior ◽  
Paulo P. Andrade ◽  
...  
Keyword(s):  
Rumen Fluid ◽  
16S Rrna Gene Sequencing ◽  
Positive Control ◽  
Control Measures ◽  
Rrna Gene ◽  
Isolation And Identification ◽  
Poisonous Plants ◽  
Degrading Bacteria ◽  
Rrna Gene Sequencing ◽  
Orbital Shaker

The objective of this paper was to report the isolation of two fluoroacetate degrading bacteria from the rumen of goats. The animals were adult goats, males, crossbred, with rumen fistula, fed with hay, and native pasture. The rumen fluid was obtained through the rumen fistula and immediately was inoculated 100 μL in mineral medium added with 20 mmol L−1sodium fluoroacetate (SF), incubated at 39°C in an orbital shaker.Pseudomonas fluorescens(strain DSM 8341) was used as positive control for fluoroacetate dehalogenase activity. Two isolates were identified by 16S rRNA gene sequencing asPigmentiphaga kullae(ECPB08) andAncylobacter dichloromethanicus(ECPB09). These bacteria degraded sodium fluoroacetate, releasing 20 mmol L−1of fluoride ion after 32 hours of incubation in Brunner medium containing 20 mmol L−1of SF. There are no previous reports of fluoroacetate dehalogenase activity forP. kullaeandA. dichloromethanicus. Control measures to prevent plant intoxication, including use of fences, herbicides, or other methods of eliminating poisonous plants, have been unsuccessful to avoid poisoning by fluoroacetate containing plants in Brazil. In this way,P. kullaeandA. dichloromethanicusmay be used to colonize the rumen of susceptible animals to avoid intoxication by fluoroacetate containing plants.

ISOLATION AND IDENTIFICATION OF RHIZOSPHERIC BACTERIA ASSOCIATED WITH LEMONGRASS FOR POTENTIAL BIOREMEDIATION

2015 ◽  
Vol 77 (24) ◽  
Author(s):  
Najwa Husna Sanusi ◽  
Phang Ing Chia ◽  
Noor Faizul Hadry Nordin
Keyword(s):  
Future Research ◽  
Rrna Gene ◽  
Public Attention ◽  
Isolation And Identification ◽  
Severe Problem ◽  
Rhizospheric Bacteria ◽  
Large Numbers ◽  
Degrading Bacteria ◽  
Cleaner Technology ◽  
Remediation Process

Contamination of soil and groundwater pollution is a severe problem, has been attracting considerable public attention over the last decades. With the demand for green and cleaner technology for remediation process, there is an increased interest in moving away from conventional technologies towards bioremediation technologies. Rhizospheric zone is a suitable place for harboring bacteria that are capable to utilize chemical compounds which will be used either to facilitate growth of bacteria or the host plants. Identification of the specific microbial members should allow for better strategies to enhance biodegradation. This study aimed to isolate and identify the rhizospheric associated microbes of lemongrass (Cymbopogon citratus), a plant that commonly available in South East Asia, which could be used in future research on degradation studies of dibenzofuran. This probably is due to their ability to harbor large numbers of bacteria on their highly branched root systems. A total of 68 strains of dibenzofuran (DF)- degrading bacteria isolated from the rhizospheric soil of lemon grass from 2 different unpolluted sites were characterized. The isolates showed the ability to utilize dibenzofuran as the sole carbon and energy source up to 40 ppm. Identification of the isolates based on 16S rRNA gene sequence assigned them as members of the phyla Proteobacteria and Firmicutes, among which those of the genera, Proteobacteria were most abundant. The presented results indicated the potential of these bacterial isolates in bioremediation of dibenzofuran-contaminated soil.

Characterization of aerobic azo dye-degrading bacteria and their activity in biofilms

1997 ◽  
Vol 36 (1) ◽  
pp. 215-220 ◽  
Author(s):  
M. F. Coughlin ◽  
B. K. Kinkle ◽  
A. Tepper ◽  
P. L. Bishop
Keyword(s):  
Phylogenetic Analysis ◽  
Azo Dyes ◽  
Azo Dye ◽  
Fluorescent Antibody ◽  
Waste Water Treatment ◽  
Treatment Plant ◽  
Waste Water Treatment Plant ◽  
Rrna Gene ◽  
Degrading Bacterium ◽  
Degrading Bacteria

An azo dye-degrading strain, originally named TBX65, was isolated from the mixed liquor of the Mill Creek waste water treatment plant in Cincinnati, Ohio. Strain TBX65 has the unusual ability to aerobically reduce the azo bond of several azo dyes and is able to use some of these dyes as growth substrate. Subsequent investigations have revealed that TBX65 is actually composed of several strains including two azo dye-degrading strains, MC1 and MI2. Strain MI2 is able to use the azo dyes AO7 and AO8 as its sole source of carbon, energy, and nitrogen. In contrast, MC1 can aerobically reduce the azo bond of these dyes but only in the presence of an exogenous source of carbon and nitrogen. Both MC1 and MI2 are Gram negative, rod-shaped bacteria that form yellow colonies. Sequencing and phylogenetic analysis of the 16S rRNA gene of MC1 indicates that it is a strain of Sphingomonas. Based on this phylogenetic analysis, the most closely related strain to MC1 is strain C7, a previously described azo dye-degrading bacterium isolated from biofilms growing in our laboratories. A strain-specific fluorescent antibody has been developed for strains MC1 and MI2, and is being used to determine the survival and azo dye-degrading ability of these strains in biofilms generated in a rotating drum bioreactor.

scholarly journals Shewanella mangrovi sp. nov., an acetaldehyde-degrading bacterium isolated from mangrove sediment

2015 ◽  
Vol 65 (Pt_8) ◽  
pp. 2630-2634 ◽  
Author(s):  
Yang Liu ◽  
Xie-Xie Shang ◽  
Zhi-Wei Yi ◽  
Li Gu ◽  
Run-Ying Zeng
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Mangrove Sediment ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Degrading Bacterium ◽  
Degrading Bacteria ◽  
Major Respiratory Quinone

A taxonomic study was carried out on strain YQH10T, which was isolated from mangrove sediment collected from Zhangzhou, China during the screening of acetaldehyde-degrading bacteria. Cells of strain YQH10T were Gram-stain-negative rods and pale brown-pigmented. Growth was observed at salinities from 0 to 11 % and at temperatures from 4 to 42 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YQH10T is affiliated to the genus Shewanella, showing the highest similarity with Shewanella haliotis DW01T (95.7 %) and other species of the genus Shewanella (91.4–95.6 %). The principal fatty acids were iso-C15 : 0 and C17 : 1ω8c. The major respiratory quinone was Q-8. The polar lipids comprised phosphatidylethanolamine and phosphatidylglycerol. The genomic DNA had a G+C content of 48.3 mol%. Strain YQH10T can completely degrade 0.02 % (w/v) acetaldehyde on 2216E at 28 °C within 48 h. Based on these phenotypic and genotypic data, strain YQH10T represents a novel species of the genus Shewanella, for which the name Shewanella mangrovi sp. nov. is proposed. The type strain is YQH10T ( = MCCC 1A00830T = JCM 30121T).

scholarly journals Isolation and Characterization of Microcystin Degrading Bacteria from Holy Ponds in India

2017 ◽  
Vol 4 (4) ◽  
pp. 436-447 ◽  
Author(s):  
Vikram Pal Gandhi ◽  
Anil Kumar
Keyword(s):  
Restriction Analysis ◽  
Water Bodies ◽  
Rrna Gene ◽  
Degrading Bacterium ◽  
Isolation And Characterization ◽  
Chronic Poisoning ◽  
Degrading Bacteria ◽  
Health Related ◽  
Water Treatments

Microcystins (MCs) are toxic cyclic heptapeptides produced by few toxic cyanobacteria and generally form blooms in eutrophic surface fresh water bodies. They cause acute to chronic poisoning and other health related problems mainly by irreversible inhibition of protein phosphatases (PP1 and PP2A) and increased formation of reactive oxygen species (ROS).  Due to limitation of non-biological methods of water treatments the exploration of MCs degrading bacteria is emerging at a quite pace to address, through bioremediation, the problems posed by MCs in water and water-bodies. Report and study of MCs biodegrading bacteria from India were lacking. However it was evident, from our previous study, that microcystin degradation can be achieved by indigenous microcystin degrading bacterial population in its natural place where microcystin producing blooms occur. This study has presented isolation and characterization of indigenous microcystin degrading bacteria from holy ponds in Utter Pradesh of India. Overall 20 bacterial isolates were isolated from Microcystis infested different ponds. Out of these 13 isolates were mlrA positive by PCR and were found to be distinct isolates by amplified ribosomal DNA restriction analysis (ARDRA). However, ARDRA analysis revealed overall four bacterial groups. On the basis of 16S-rRNA gene sequence the Gram-positive-rod isolate PM1 was identified, with 99% identity, as Bacillus licheniformis which was shown earlier to cluster with microcystin degrading bacterium B. subtilis. Thus the present study revealed, for the first time, probable microcystin degrading bacteria in water-bodies from India. The potential and the metabolic pathway of PM1 and other mlrA positive isolates need to be further studied and validated to confirm their application in microcystin bioremediation. Int J Appl Sci Biotechnol, Vol 4(4): 436-447

scholarly journals Characteristics of a Microcystin-Degrading Bacterium under Alkaline Environmental Conditions

2009 ◽  
Vol 2009 ◽  
pp. 1-8 ◽  
Author(s):  
Kunihiro Okano ◽  
Kazuya Shimizu ◽  
Yukio Kawauchi ◽  
Hideaki Maseda ◽  
Motoo Utsumi ◽  
...  
Keyword(s):  
Water Bloom ◽  
Rrna Gene ◽  
Degrading Bacterium ◽  
Degrading Bacteria ◽  
Optimum Ph ◽  
Degradation Activity ◽  
Ph Conditions ◽  
Toxic Blooms ◽  
The 16S Rrna Gene ◽  
Water Blooms

The pH of the water associated with toxic blooms of cyanobacteria is typically in the alkaline range; however, previously only microcystin-degrading bacteria growing in neutral pH conditions have been isolated. Therefore, we sought to isolate and characterize an alkali-tolerant microcystin-degrading bacterium from a water bloom using microcystin-LR. Analysis of the 16S rRNA gene sequence revealed that the isolated bacterium belonged to the genusSphingopyxis, and the strain was named C-1.Sphingopyxissp. C-1 can grow; at pH 11.0; however, the optimum pH for growth was pH 7.0. The microcystin degradation activity of the bacterium was the greatest between pH 6.52 and pH 8.45 but was also detected at pH 10.0. ThemlrAhomolog encoding the microcystin-degrading enzyme in the C-1 strain was conserved. We concluded that alkali-tolerant microcystin-degrading bacterium played a key role in triggering the rapid degradation of microcystin, leading to the disappearance of toxic water blooms in aquatic environments.

scholarly journals Complete Genome Sequence and Biodegradation Characteristics of Benzoic Acid-Degrading Bacterium Pseudomonas sp. SCB32

2020 ◽  
Vol 2020 ◽  
pp. 1-12
Author(s):  
Wei Xiang ◽  
Xiaolan Wei ◽  
Hui Tang ◽  
Liangbo Li ◽  
Rongshao Huang
Keyword(s):  
Mass Spectrometry ◽  
Benzoic Acid ◽  
Complete Genome ◽  
Degradation Products ◽  
Gc Content ◽  
Gas Chromatography Mass Spectrometry ◽  
Rrna Gene ◽  
16S Rrna Gene Analysis ◽  
Acid Degradation ◽  
Degrading Bacterium

Allelochemicals are metabolites produced by living organisms that have a detrimental effect on other species when released into the environment. These chemicals play critical roles in the problems associated with crop replanting. Benzoic acid is a representative allelochemical found in root exudates and rhizosphere soil of crops and inhibits crop growth. The bioremediation of allelochemicals by microorganisms is an efficient decontamination process. In this research, a bacterial strain capable of degrading benzoic acid as the sole carbon source was isolated. The genome of the strain was sequenced, and biodegradation characteristics and metabolic mechanisms were examined. Strain SCB32 was identified as Pseudomonas sp. based on 16S rRNA gene analysis coupled with physiological and biochemical analyses. The degradation rate of 800 mg L-1 benzoic acid by strain SCB32 was greater than 97.0% in 24 h. The complete genome of strain SCB32 was 6.3 Mbp with a GC content of 64.6% and 5960 coding genes. Potential benzoic acid degradation genes were found by comparison to the KEGG database. Some key intermediate metabolites of benzoic acid, such as catechol, were detected by gas chromatography-mass spectrometry. The biodegradation pathway of benzoic acid, the ortho pathway, is proposed for strain SCB32 based on combined data from genome annotation and mass spectrometry. Moreover, the benzoic acid degradation products from strain SCB32 were essentially nontoxic to lettuce seedlings, while seeds in the benzoic acid-treated group showed significant inhibition of germination. This indicates a possible application of strain SCB32 in the bioremediation of benzoic acid contamination in agricultural environments.

scholarly journals Isolation and identification of caffeine-degrading bacteria from soil, coffee pulp waste and excreted coffee bean in Luwak feces

2019 ◽  
Vol 20 (6) ◽  
Author(s):  
TOTO ISWANTO ◽  
MAYA SHOVITRI ◽  
ALI ALTWAY ◽  
TRI WIDJAJA ◽  
DINIHARI INDAH KUSUMAWATI ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Coffee Bean ◽  
Rrna Gene Sequence ◽  
Isolation And Identification ◽  
Coffee Pulp ◽  
Degrading Bacteria ◽  
Coffee Pulp Waste

Abstract. Iswanto T, Shovitri M, Altway A, Widjaja T, Kusumawati DI, Lisdiyanti P. 2019. Isolation and identification of caffeine-degrading bacteria from soil, coffee pulp waste and excreted coffee bean in Luwak feces. Biodiversitas 20: 1580-1587. The present study deals with the isolation and identification of caffeine-degrading bacteria obtained from the caffeine contaminated environment or caffeinated wastes. These bacteria are useful for various biotechnological applications especially in increasing the potential utilization of caffeinated wastes and producing the high-value chemicals. The suspected caffeine-degrading bacteria have been isolated from the soil of coffee plantation area, coffee pulp waste, and the excreted coffee bean in fresh feces of Luwak (Paradoxurus hermaphroditus or Asian Palm Civet) by growing them on the caffeinated agar medium (CAM) containing basal salt medium (M9) and caffeine as a sole source of carbon and nitrogen. CAM-supplemented with 1.5 to 10 g L-1 of caffeine has been used for screening of the potential bacteria which able to grow in high caffeine concentration. Molecular identification based on 16S rRNA gene sequence was performed to identify the selected bacteria. The result revealed that there were 11 and 3 strains of 12 selected bacteria which could grow on the CAM-supplemented with caffeine up to 7 and 10 g L-1, respectively. Based on 16S rRNA gene sequence and phylogenetic analysis, those bacteria were from 5 Gram-negative species, namely Pseudomonas japonica (4/12), Methylobacterium populi (5/12), Raoultella ornithinolytica (1/12), Klebsiella quasipneumoniae (1/12), and Stenotrophomonas chelatiphaga (1/12). Further investigations to determine their metabolic pathway, enzyme, and growth kinetics in the caffeinated medium may provide insights into its possible utilization for scientific or other applications.

scholarly journals Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacterium

2004 ◽  
Vol 54 (5) ◽  
pp. 1469-1476 ◽  
Author(s):  
Muriel Derrien ◽  
Elaine E. Vaughan ◽  
Caroline M. Plugge ◽  
Willem M. de Vos
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Rrna Gene Sequence ◽  
Akkermansia Muciniphila ◽  
Degrading Bacterium ◽  
Degrading Bacteria

The diversity of mucin-degrading bacteria in the human intestine was investigated by combining culture and 16S rRNA-dependent approaches. A dominant bacterium, strain MucT, was isolated by dilution to extinction of faeces in anaerobic medium containing gastric mucin as the sole carbon and nitrogen source. A pure culture was obtained using the anaerobic soft agar technique. Strain MucT was a Gram-negative, strictly anaerobic, non-motile, non-spore-forming, oval-shaped bacterium that could grow singly and in pairs. When grown on mucin medium, cells produced a capsule and were found to aggregate. Strain MucT could grow on a limited number of sugars, including N-acetylglucosamine, N-acetylgalactosamine and glucose, but only when a protein source was provided and with a lower growth rate and final density than on mucin. The G+C content of DNA from strain MucT was 47·6 mol%. 16S rRNA gene sequence analysis revealed that the isolate was part of the division Verrucomicrobia. The closest described relative of strain MucT was Verrucomicrobium spinosum (92 % sequence similarity). Remarkably, the 16S rRNA gene sequence of strain MucT showed 99 % similarity to three uncultured colonic bacteria. According to the data obtained in this work, strain MucT represents a novel bacterium belonging to a new genus in subdivision 1 of the Verrucomicrobia; the name Akkermansia muciniphila gen. nov., sp. nov. is proposed; the type strain is MucT (=ATCC BAA-835T=CIP 107961T).

scholarly journals Isolation, Characterization, and Genomic Analysis of Pseudomonas sp. Strain SMT-1, an Efficient Fluorene-Degrading Bacterium

2019 ◽  
Vol 15 ◽  
pp. 117693431984351
Author(s):  
Mulugeta Desta ◽  
Weiwei Wang ◽  
Lige Zhang ◽  
Ping Xu ◽  
Hongzhi Tang
Keyword(s):  
Molecular Mechanisms ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Maximum Growth ◽  
Rrna Gene ◽  
Pseudomonas Sp ◽  
Total Size ◽  
Inorganic Ion ◽  
Degrading Bacterium ◽  
Degrading Bacteria

Comprehensive study of novel microbial organisms capable of degrading fluorene is crucial to develop essential strategies for further application on enhanced bioremediation technologies. Many fluorene-degrading bacteria have been studied; however, little information about the genome sequences of these organisms, which would facilitate investigation of the molecular mechanisms of fluorene degradation, is available. In this study, a bacterial strain designated SMT-1, which uses fluorene as its sole carbon source, was isolated from Laogang landfill in Shanghai, People’s Republic of China, and identified as a Pseudomonas sp., based on 16S rRNA gene sequence analysis. Maximum growth and degrading activity of strain SMT-1 were observed at 30°C, pH 7.0 and 200 r/min in mineral salt medium containing 0.4 mm fluorene. We obtained a draft genome sequence of strain SMT-1 to gain insight into the genetic mechanisms for the degradation of aromatic compounds. Sequences greater than 1 kb in length were obtained by Illumina sequencing; strain SMT-1 was found to contain 5542 predicted genes. This working draft genome comprises 68 contigs and DNA scaffolds and has a total size of 6 108 237 bp and a calculated G + C content of 61.59%. Amino acid metabolism clusters were enriched in SMT-1 genes annotation, with the highest abundant observed for the “ABC transporters” subcategories, followed by transcription, energy production and conversion, and inorganic ion transport and metabolism. The genomic information for SMT-1 provides a useful resource for elucidating the molecular mechanism of fluorene catabolism.

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