9 results on '"Daniel K. Manter"'
Search Results
2. Correction: Root Exudation of Phytochemicals in Arabidopsis Follows Specific Patterns That Are Developmentally Programmed and Correlate with Soil Microbial Functions.
- Author
-
Jacqueline M. Chaparro, Dayakar V. Badri, Matthew G. Bakker, Akifumi Sugiyama, Daniel K. Manter, and Jorge M. Vivanco
- Subjects
Medicine ,Science - Published
- 2013
- Full Text
- View/download PDF
Catalog
3. Soil microbiome disruption reveals specific and general plant-bacterial relationships in three agroecosystem soils
- Author
-
Michael J. DiLegge, Daniel K. Manter, and Jorge M. Vivanco
- Subjects
Crops, Agricultural ,Soil ,Multidisciplinary ,Bacteria ,Microbiota ,Rhizosphere ,Plant Roots ,Soil Microbiology - Abstract
Soil microbiome disruption methods are regularly used to reduce populations of microbial pathogens, often resulting in increased crop growth. However, little is known about the effect of soil microbiome disruption on non-pathogenic members of the soil microbiome. Here, we applied soil microbiome disruption in the form of moist-heat sterilization (autoclaving) to reduce populations of naturally occurring soil microbiota. The disruption was applied to analyze bacterial community rearrangement mediated by four crops (corn, beet, lettuce, and tomato) grown in three historically distinct agroecosystem soils (conventional, organic, and diseased). Applying the soil disruption enhanced plant influence on rhizosphere bacterial colonization, and significantly different bacterial communities were detected between the tested crops. Furthermore, bacterial genera showed significant abundance increases in ways both unique-to and shared-by each tested crop. As an example, corn uniquely promoted abundances of Pseudomonas and Sporocytophaga, regardless of the disrupted soil in which it was grown. Whereas the promotion of Bosea, Dyadobacter and Luteoliobacter was shared by all four crops when grown in disrupted soils. In summary, soil disruption followed by crop introduction amplified the plant colonization of potential beneficial bacterial genera in the rhizosphere. more...
- Published
- 2021
4. Stool microbiome and metabolome differences between colorectal cancer patients and healthy adults
- Author
-
Brittany A. Barnett, Elizabeth P. Ryan, Tiffany L. Weir, Daniel K. Manter, Adam L. Heuberger, and Amy M. Sheflin
- Subjects
Male ,Colorectal cancer ,lcsh:Medicine ,Gastroenterology ,Feces ,0302 clinical medicine ,Gastrointestinal Cancers ,lcsh:Science ,Aged, 80 and over ,0303 health sciences ,Chromatography ,Multidisciplinary ,Bile acid ,Systems Biology ,Cancer Risk Factors ,Microbiota ,Colon Adenocarcinoma ,Middle Aged ,Ursodeoxycholic acid ,3. Good health ,Host-Pathogen Interaction ,Chemistry ,Oncology ,Medical Microbiology ,Health ,030220 oncology & carcinogenesis ,Metabolome ,Medicine ,Female ,Colorectal Neoplasms ,Akkermansia muciniphila ,Carcinoma in Situ ,medicine.drug ,Research Article ,Adult ,medicine.medical_specialty ,medicine.drug_class ,Viral and Bacterial Causes of Cancer ,Butyrate ,Gastroenterology and Hepatology ,Biology ,Microbiology ,Microbial Ecology ,Rectal Cancer ,03 medical and health sciences ,Internal medicine ,Chemical Biology ,Gastrointestinal Tumors ,medicine ,Humans ,Microbiome ,030304 developmental biology ,Microbial Metabolism ,Gas Chromatography ,Aged ,lcsh:R ,Case-control study ,Cancers and Neoplasms ,medicine.disease ,biology.organism_classification ,Case-Control Studies ,lcsh:Q - Abstract
In this study we used stool profiling to identify intestinal bacteria and metabolites that are differentially represented in humans with colorectal cancer (CRC) compared to healthy controls to identify how microbial functions may influence CRC development. Stool samples were collected from healthy adults (n = 10) and colorectal cancer patients (n = 11) prior to colon resection surgery at the University of Colorado Health-Poudre Valley Hospital in Fort Collins, CO. The V4 region of the 16s rRNA gene was pyrosequenced and both short chain fatty acids and global stool metabolites were extracted and analyzed utilizing Gas Chromatography-Mass Spectrometry (GC-MS). There were no significant differences in the overall microbial community structure associated with the disease state, but several bacterial genera, particularly butyrate-producing species, were under-represented in the CRC samples, while a mucin-degrading species, Akkermansia muciniphila, was about 4-fold higher in CRC (p more...
- Published
- 2013
5. Root exudation of phytochemicals in Arabidopsis follows specific patterns that are developmentally programmed and correlate with soil microbial functions
- Author
-
Jacqueline M. Chaparro, Dayakar V. Badri, Matthew G. Bakker, Akifumi Sugiyama, Jorge M. Vivanco, and Daniel K. Manter
- Subjects
Arabidopsis ,lcsh:Medicine ,Gene Expression ,Plant Science ,Plant Roots ,Biochemistry ,chemistry.chemical_compound ,Plant Microbiology ,Gene Expression Regulation, Plant ,Arabidopsis thaliana ,lcsh:Science ,2. Zero hunger ,chemistry.chemical_classification ,Plant Growth and Development ,0303 health sciences ,Rhizosphere ,Principal Component Analysis ,Multidisciplinary ,Ecology ,Reverse Transcriptase Polymerase Chain Reaction ,Plant Anatomy ,Plant physiology ,Gene Expression Regulation, Developmental ,Agriculture ,Plants ,Amino acid ,Research Article ,Plant Exudates ,Molecular Sequence Data ,Carbohydrates ,Soil Science ,Biology ,Microbiology ,Sugar acids ,Gas Chromatography-Mass Spectrometry ,03 medical and health sciences ,Biosynthesis ,Plant-Environment Interactions ,Botany ,Genetics ,030304 developmental biology ,Base Sequence ,030306 microbiology ,Gene Expression Profiling ,Plant Ecology ,lcsh:R ,Sugar Acids ,Metabolism ,Sequence Analysis, DNA ,15. Life on land ,biology.organism_classification ,chemistry ,Metagenome ,lcsh:Q - Abstract
Plant roots constantly secrete compounds into the soil to interact with neighboring organisms presumably to gain certain functional advantages at different stages of development. Accordingly, it has been hypothesized that the phytochemical composition present in the root exudates changes over the course of the lifespan of a plant. Here, root exudates of in vitro grown Arabidopsis plants were collected at different developmental stages and analyzed using GC-MS. Principle component analysis revealed that the composition of root exudates varied at each developmental stage. Cumulative secretion levels of sugars and sugar alcohols were higher in early time points and decreased through development. In contrast, the cumulative secretion levels of amino acids and phenolics increased over time. The expression in roots of genes involved in biosynthesis and transportation of compounds represented in the root exudates were consistent with patterns of root exudation. Correlation analyses were performed of the in vitro root exudation patterns with the functional capacity of the rhizosphere microbiome to metabolize these compounds at different developmental stages of Arabidopsis grown in natural soils. Pyrosequencing of rhizosphere mRNA revealed strong correlations (p more...
- Published
- 2012
6. Soil microbiome disruption reveals specific and general plant-bacterial relationships in three agroecosystem soils.
- Author
-
Michael J DiLegge, Daniel K Manter, and Jorge M Vivanco
- Subjects
Medicine ,Science - Abstract
Soil microbiome disruption methods are regularly used to reduce populations of microbial pathogens, often resulting in increased crop growth. However, little is known about the effect of soil microbiome disruption on non-pathogenic members of the soil microbiome. Here, we applied soil microbiome disruption in the form of moist-heat sterilization (autoclaving) to reduce populations of naturally occurring soil microbiota. The disruption was applied to analyze bacterial community rearrangement mediated by four crops (corn, beet, lettuce, and tomato) grown in three historically distinct agroecosystem soils (conventional, organic, and diseased). Applying the soil disruption enhanced plant influence on rhizosphere bacterial colonization, and significantly different bacterial communities were detected between the tested crops. Furthermore, bacterial genera showed significant abundance increases in ways both unique-to and shared-by each tested crop. As an example, corn uniquely promoted abundances of Pseudomonas and Sporocytophaga, regardless of the disrupted soil in which it was grown. Whereas the promotion of Bosea, Dyadobacter and Luteoliobacter was shared by all four crops when grown in disrupted soils. In summary, soil disruption followed by crop introduction amplified the plant colonization of potential beneficial bacterial genera in the rhizosphere. more...
- Published
- 2022
- Full Text
- View/download PDF
7. Root exudation of phytochemicals in Arabidopsis follows specific patterns that are developmentally programmed and correlate with soil microbial functions.
- Author
-
Jacqueline M Chaparro, Dayakar V Badri, Matthew G Bakker, Akifumi Sugiyama, Daniel K Manter, and Jorge M Vivanco
- Subjects
Medicine ,Science - Abstract
Plant roots constantly secrete compounds into the soil to interact with neighboring organisms presumably to gain certain functional advantages at different stages of development. Accordingly, it has been hypothesized that the phytochemical composition present in the root exudates changes over the course of the lifespan of a plant. Here, root exudates of in vitro grown Arabidopsis plants were collected at different developmental stages and analyzed using GC-MS. Principle component analysis revealed that the composition of root exudates varied at each developmental stage. Cumulative secretion levels of sugars and sugar alcohols were higher in early time points and decreased through development. In contrast, the cumulative secretion levels of amino acids and phenolics increased over time. The expression in roots of genes involved in biosynthesis and transportation of compounds represented in the root exudates were consistent with patterns of root exudation. Correlation analyses were performed of the in vitro root exudation patterns with the functional capacity of the rhizosphere microbiome to metabolize these compounds at different developmental stages of Arabidopsis grown in natural soils. Pyrosequencing of rhizosphere mRNA revealed strong correlations (p more...
- Published
- 2013
- Full Text
- View/download PDF
8. Stool microbiome and metabolome differences between colorectal cancer patients and healthy adults.
- Author
-
Tiffany L Weir, Daniel K Manter, Amy M Sheflin, Brittany A Barnett, Adam L Heuberger, and Elizabeth P Ryan
- Subjects
Medicine ,Science - Abstract
In this study we used stool profiling to identify intestinal bacteria and metabolites that are differentially represented in humans with colorectal cancer (CRC) compared to healthy controls to identify how microbial functions may influence CRC development. Stool samples were collected from healthy adults (n = 10) and colorectal cancer patients (n = 11) prior to colon resection surgery at the University of Colorado Health-Poudre Valley Hospital in Fort Collins, CO. The V4 region of the 16s rRNA gene was pyrosequenced and both short chain fatty acids and global stool metabolites were extracted and analyzed utilizing Gas Chromatography-Mass Spectrometry (GC-MS). There were no significant differences in the overall microbial community structure associated with the disease state, but several bacterial genera, particularly butyrate-producing species, were under-represented in the CRC samples, while a mucin-degrading species, Akkermansia muciniphila, was about 4-fold higher in CRC (p more...
- Published
- 2013
- Full Text
- View/download PDF
9. Root secreted metabolites and proteins are involved in the early events of plant-plant recognition prior to competition.
- Author
-
Dayakar V Badri, Clelia De-la-Peña, Zhentian Lei, Daniel K Manter, Jacqueline M Chaparro, Rejane L Guimarães, Lloyd W Sumner, and Jorge M Vivanco
- Subjects
Medicine ,Science - Abstract
The mechanism whereby organisms interact and differentiate between others has been at the forefront of scientific inquiry, particularly in humans and certain animals. It is widely accepted that plants also interact, but the degree of this interaction has been constricted to competition for space, nutrients, water and light. Here, we analyzed the root secreted metabolites and proteins involved in early plant neighbor recognition by using Arabidopsis thaliana Col-0 ecotype (Col) as our focal plant co-cultured in vitro with different neighbors [A. thaliana Ler ecotype (Ler) or Capsella rubella (Cap)]. Principal component and cluster analyses revealed that both root secreted secondary metabolites and proteins clustered separately between the plants grown individually (Col-0, Ler and Cap grown alone) and the plants co-cultured with two homozygous individuals (Col-Col, Ler-Ler and Cap-Cap) or with different individuals (Col-Ler and Col-Cap). In particularly, we observed that a greater number of defense- and stress-related proteins were secreted when our control plant, Col, was grown alone as compared to when it was co-cultured with another homozygous individual (Col-Col) or with a different individual (Col-Ler and Col-Cap). However, the total amount of defense proteins in the exudates of the co-cultures was higher than in the plant alone. The opposite pattern of expression was identified for stress-related proteins. These data suggest that plants can sense and respond to the presence of different plant neighbors and that the level of relatedness is perceived upon initial interaction. Furthermore, the role of secondary metabolites and defense- and stress-related proteins widely involved in plant-microbe associations and abiotic responses warrants reassessment for plant-plant interactions. more...
- Published
- 2012
- Full Text
- View/download PDF
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