Response of soybean rhizosphere communities to human hygiene water addition as determined by community level physiological profiling (CLPP) and terminal restriction fragment length polymorphism (TRFLP) analysis
In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assembla...
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| Published in: | FEMS microbiology letters Vol. 184; no. 1; pp. 95 - 101 |
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| Main Authors: | , , |
| Format: | Journal Article |
| Language: | English |
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Elsevier B.V
01.03.2000
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| ISSN: | 0378-1097, 1574-6968 |
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| Abstract | In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assemblage of the plants and ultimately to identify the specific microorganism(s) which differed when plants were exposed to hygiene water and other hydroponic media. Plants were grown in hydroponics media corresponding to four different treatments: control (Hoagland’s solution), artificial gray water (Hoagland’s+surfactant), filtered gray water collected from human subjects on site, and unfiltered gray water. Differences in rhizosphere microbial populations in all experimental treatments were observed when compared to the control treatment using both community level physiological profiles (BIOLOG) and molecular fingerprinting of 16S rRNA genes by terminal restriction fragment length polymorphism analysis (TRFLP). Furthermore, screening of a clonal library of 16S rRNA genes by TRFLP yielded nearly full length SSU genes associated with the various treatments. Most 16S rRNA genes were affiliated with the
Klebsiella,
Pseudomonas,
Variovorax,
Burkholderia,
Bordetella and
Isosphaera groups. This molecular approach demonstrated the ability to rapidly detect and identify microorganisms unique to experimental treatments and provides a means to fingerprint microbial communities in the biosystems being developed at NASA for optimizing advanced life support operations. |
|---|---|
| AbstractList | In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assemblage of the plants and ultimately to identify the specific microorganism(s) which differed when plants were exposed to hygiene water and other hydroponic media. Plants were grown in hydroponics media corresponding to four different treatments: control (Hoagland's solution), artificial gray water (Hoagland's+surfactant), filtered gray water collected from human subjects on site, and unfiltered gray water. Differences in rhizosphere microbial populations in all experimental treatments were observed when compared to the control treatment using both community level physiological profiles (BIOLOG) and molecular fingerprinting of 16S rRNA genes by terminal restriction fragment length polymorphism analysis (TRFLP). Furthermore, screening of a clonal library of 16S rRNA genes by TRFLP yielded nearly full length SSU genes associated with the various treatments. Most 16S rRNA genes were affiliated with the Klebsiella, Pseudomonas, Variovorax, Burkholderia, Bordetella and Isosphaera groups. This molecular approach demonstrated the ability to rapidly detect and identify microorganisms unique to experimental treatments and provides a means to fingerprint microbial communities in the biosystems being developed at NASA for optimizing advanced life support operations. In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assemblage of the plants and ultimately to identify the specific microorganism(s) which differed when plants were exposed to hygiene water and other hydroponic media. Plants were grown in hydroponics media corresponding to four different treatments: control (Hoagland’s solution), artificial gray water (Hoagland’s+surfactant), filtered gray water collected from human subjects on site, and unfiltered gray water. Differences in rhizosphere microbial populations in all experimental treatments were observed when compared to the control treatment using both community level physiological profiles (BIOLOG) and molecular fingerprinting of 16S rRNA genes by terminal restriction fragment length polymorphism analysis (TRFLP). Furthermore, screening of a clonal library of 16S rRNA genes by TRFLP yielded nearly full length SSU genes associated with the various treatments. Most 16S rRNA genes were affiliated with the Klebsiella, Pseudomonas, Variovorax, Burkholderia, Bordetella and Isosphaera groups. This molecular approach demonstrated the ability to rapidly detect and identify microorganisms unique to experimental treatments and provides a means to fingerprint microbial communities in the biosystems being developed at NASA for optimizing advanced life support operations. |
| Author | Kerkhof, Lee Garland, Jay Santoro, Marc |
| Author_xml | – sequence: 1 givenname: Lee surname: Kerkhof fullname: Kerkhof, Lee email: kerkhof@imcs.rutgers.edu organization: Institute of Marine and Coastal Sciences, Rutgers University, New Brunswick, NJ 08901-8521, USA – sequence: 2 givenname: Marc surname: Santoro fullname: Santoro, Marc organization: Schering-Plough Research Institute, 1011 Morris Avenue, Union, NJ 07083, USA – sequence: 3 givenname: Jay surname: Garland fullname: Garland, Jay organization: Dynamac Corp., Kennedy Space Center, FL 32899, USA |
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| Keywords | Gray water treatment Advanced life support Community level physiological profiling Terminal restriction fragment length polymorphism analysis Rhizosphere bacterium |
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| References_xml | – volume: 31 start-page: 135 year: 1998 end-page: 142 ident: BIB5 article-title: Terminal restriction fragment patterns (trfps), a rapid, PCR-based method for the comparison of complex bacterial communities publication-title: J. Microbiol. Methods – volume: 55 start-page: 536 year: 1989 end-page: 539 ident: BIB13 article-title: Breathprints at the microbial level publication-title: Am. Soc. Microbiol. News – volume: 18 start-page: 215 year: 1996 end-page: 224 ident: BIB11 article-title: NASA’s biomass production chamber: A testbed for bioregenerative life support publication-title: Adv. Space Res. – volume: 57 start-page: 2351 year: 1991 end-page: 2359 ident: BIB14 article-title: Classification and characterization of heterotrophic microbial communities on the basis of patterns of community-level-sole-carbon-source-utilization publication-title: Appl. Environ. Microbiol. – volume: 27 start-page: 269 year: 1998 end-page: 279 ident: BIB7 article-title: Molecular characterization of a sulfate-reducing consortium which mineralizes benzene publication-title: FEMS Microbiol. Ecol. – reference: Atlas, R.M. and Bartha, R. (1993) In: Microbial Ecology: Fundamentals and Applications (Atlas, R.M. and Bartha, R., Eds.), pp. 289–345. The Benjamin/Cummings Publishing Company, Redwood City, CA. – reference: Lane, D. (1991) In: Nucleic Acid Techniques in Bacterial Systematics (Stackebrandt, E. and Goodfellow, M., Eds.), pp. 115–175. John Wiley and Sons, New York. – volume: 122 start-page: 792 year: 1997 end-page: 796 ident: BIB12 article-title: Phytotoxic effect of gray water due to surfactants publication-title: J. Am. Soc. Hortic. Sci. – volume: 63 start-page: 983 year: 1997 end-page: 989 ident: BIB3 article-title: Bacterial diversity among small-subunit rRNA gene clones and cellular isolates from the same seawater sample publication-title: Appl. Environ. Microbiol. – volume: 17 start-page: 144 year: 1994 end-page: 146 ident: BIB4 article-title: A molecular technique for identification of bacteria using small subunit ribosomal RNA sequences publication-title: Biotechniques – volume: 63 start-page: 4516 year: 1997 end-page: 4522 ident: BIB6 article-title: Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA publication-title: Appl. Environ. Microbiol. – volume: 215 start-page: 403 year: 1990 end-page: 413 ident: BIB18 article-title: Basic local alignment search tool publication-title: J. Mol. Biol. – volume: 28 start-page: 213 year: 1996 end-page: 221 ident: BIB15 article-title: Analytical approaches to characterization of samples of microbial communities using sole carbon source utilization patterns publication-title: Soil Biol. Biochem. – volume: 64 start-page: 4877 year: 1998 end-page: 4882 ident: BIB2 article-title: Assessment of changes in microbial community structure during operation of an ammonia biofilter with molecular tools publication-title: Appl. Environ. Microbiol. – volume: 63 start-page: 4914 year: 1997 end-page: 4919 ident: BIB9 article-title: Analysis of publication-title: Appl. Environ. Microbiol. – volume: 59 start-page: 1303 year: 1993 end-page: 1309 ident: BIB16 article-title: Comparison of nucleic acid hybridization and fluorometry for measurement of the relationship between RNA/DNA ratio and growth rate in a marine bacterium publication-title: Appl. Environ. Microbiol. – volume: 5 start-page: 584 year: 1990 end-page: 599 ident: BIB19 article-title: The similarity index and DNA fingerprint publication-title: Mol. Biol. Evol. – volume: 29 start-page: 137 year: 1999 end-page: 147 ident: BIB10 article-title: Community analyses of sulfidogenic 2-bromophenol-dehalogenating and phenol-degrading microbial consortia publication-title: FEMS Microbiol. Ecol. – volume: 173 start-page: 189 year: 1999 end-page: 194 ident: BIB8 article-title: Detection of methanogenic archaea in seawater particles and the digestive tract of a marine fish species publication-title: FEMS Microbiol. Lett. |
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| SubjectTerms | Advanced life support Bordetella Burkholderia Community level physiological profiling Gray water treatment Isosphaera Klebsiella Pseudomonas Rhizosphere bacterium rRNA 16S rRNA 16S gene Terminal restriction fragment length polymorphism analysis Variovorax |
| Title | Response of soybean rhizosphere communities to human hygiene water addition as determined by community level physiological profiling (CLPP) and terminal restriction fragment length polymorphism (TRFLP) analysis |
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