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Islam MM, Kolling GL, Glass EM, Goldberg JB, Papin JA. Model-driven characterization of functional diversity of Pseudomonas aeruginosa clinical isolates with broadly representative phenotypes. Microb Genom 2024; 10. [PMID: 38836744 DOI: 10.1099/mgen.0.001259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/06/2024] Open
Abstract
Pseudomonas aeruginosa is a leading cause of infections in immunocompromised individuals and in healthcare settings. This study aims to understand the relationships between phenotypic diversity and the functional metabolic landscape of P. aeruginosa clinical isolates. To better understand the metabolic repertoire of P. aeruginosa in infection, we deeply profiled a representative set from a library of 971 clinical P. aeruginosa isolates with corresponding patient metadata and bacterial phenotypes. The genotypic clustering based on whole-genome sequencing of the isolates, multilocus sequence types, and the phenotypic clustering generated from a multi-parametric analysis were compared to each other to assess the genotype-phenotype correlation. Genome-scale metabolic network reconstructions were developed for each isolate through amendments to an existing PA14 network reconstruction. These network reconstructions show diverse metabolic functionalities and enhance the collective P. aeruginosa pangenome metabolic repertoire. Characterizing this rich set of clinical P. aeruginosa isolates allows for a deeper understanding of the genotypic and metabolic diversity of the pathogen in a clinical setting and lays a foundation for further investigation of the metabolic landscape of this pathogen and host-associated metabolic differences during infection.
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Affiliation(s)
- Mohammad Mazharul Islam
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22903, USA
| | - Glynis L Kolling
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22903, USA
| | - Emma M Glass
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22903, USA
| | | | - Jason A Papin
- Department of Biomedical Engineering, University of Virginia, Charlottesville, VA 22903, USA
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2
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Islam MM, Kolling GL, Glass EM, Goldberg JB, Papin JA. Model-driven characterization of functional diversity of Pseudomonas aeruginosa clinical isolates with broadly representative phenotypes. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.10.08.561426. [PMID: 37873245 PMCID: PMC10592701 DOI: 10.1101/2023.10.08.561426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Pseudomonas aeruginosa is a leading cause of infections in immunocompromised individuals and in healthcare settings. This study aims to understand the relationships between phenotypic diversity and the functional metabolic landscape of P. aeruginosa clinical isolates. To better understand the metabolic repertoire of P. aeruginosa in infection, we deeply profiled a representative set from a library of 971 clinical P. aeruginosa isolates with corresponding patient metadata and bacterial phenotypes. The genotypic clustering based on whole-genome sequencing of the isolates, multi-locus sequence types, and the phenotypic clustering generated from a multi-parametric analysis were compared to each other to assess the genotype-phenotype correlation. Genome-scale metabolic network reconstructions were developed for each isolate through amendments to an existing PA14 network reconstruction. These network reconstructions show diverse metabolic functionalities and enhance the collective P. aeruginosa pangenome metabolic repertoire. Characterizing this rich set of clinical P. aeruginosa isolates allows for a deeper understanding of the genotypic and metabolic diversity of the pathogen in a clinical setting and lays a foundation for further investigation of the metabolic landscape of this pathogen and host-associated metabolic differences during infection.
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Affiliation(s)
- Mohammad Mazharul Islam
- Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22903
| | - Glynis L. Kolling
- Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22903
| | - Emma M. Glass
- Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22903
| | | | - Jason A. Papin
- Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, 22903
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3
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Hendrix J, Epperson LE, Tong EI, Chan YL, Hasan NA, Dawrs SN, Norton GJ, Virdi R, Crooks JL, Chan ED, Honda JR, Strong M. Complete genome assembly of Hawai'i environmental nontuberculous mycobacteria reveals unexpected co-isolation with methylobacteria. PLoS One 2023; 18:e0291072. [PMID: 37703253 PMCID: PMC10499228 DOI: 10.1371/journal.pone.0291072] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Accepted: 08/22/2023] [Indexed: 09/15/2023] Open
Abstract
Nontuberculous mycobacteria (NTM) are ubiquitous environmental opportunistic pathogens that can cause chronic lung disease. Within the United States, Hawai'i has the highest incidence of NTM lung disease, though the precise reasons are yet to be fully elucidated. One possibility is the high prevalence of NTM in the Hawai'i environment acting as a potential reservoir for opportunistic NTM infections. Through our previous initiatives to collect and characterize NTM in Hawai'i, community scientists of Hawai'i have collected thousands of environmental samples for sequencing. Here, these community scientists were invited for the first time into a high school lab in O'ahu for a genomic sequencing workshop, where participants sequenced four of the collected isolate genomic samples using the Oxford Nanopore Technologies MinION sequencer. Participants generated high quality long read data that when combined with short read Illumina data yielded complete bacterial genomic assemblies suitable for in-depth analysis. The gene annotation analysis identified a suite of genes that might help NTM thrive in the Hawai'i environment. Further, we found evidence of co-occurring methylobacteria, revealed from the sequencing data, suggesting that in some cases methylobacteria and NTM may coexist in the same niche, challenging previously accepted paradigms. The sequencing efforts presented here generated novel insights regarding the potential survival strategies and microbial interactions of NTM in the geographic hot spot of Hawai'i. We highlight the contributions of community scientists and present an activity that can be reimplemented as a workshop or classroom activity by other research groups to engage their local communities.
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Affiliation(s)
- Jo Hendrix
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
- Computational Bioscience Program, University of Colorado, Anschutz Medical Campus, Aurora, CO, United States of America
| | - L. Elaine Epperson
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
| | - Eric I. Tong
- ‘Iolani School, Honolulu, Hawai’i, United States of America
| | - Yvonne L. Chan
- ‘Iolani School, Honolulu, Hawai’i, United States of America
| | - Nabeeh A. Hasan
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
| | - Stephanie N. Dawrs
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
| | - Grant J. Norton
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
| | - Ravleen Virdi
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
| | - James L. Crooks
- Division of Biostatistics and Bioinformatics, National Jewish Health, Denver, CO, United States of America
- Department of Epidemiology, Colorado School of Public Health, Aurora, CO, United States of America
| | - Edward D. Chan
- Department of Medicine and Academic Affairs, National Jewish Health, Denver, CO, United States of America
- Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado Anschutz Medical Campus, Aurora, CO, United States of America
- Department of Medicine, Rocky Mountain Regional Veterans Affairs Medical Center, Aurora, CO, United States of America
| | - Jennifer R. Honda
- Department of Cellular and Molecular Biology, School of Medicine, University of Texas Health Science Center at Tyler, Tyler, TX, United States of America
| | - Michael Strong
- Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, United States of America
- Computational Bioscience Program, University of Colorado, Anschutz Medical Campus, Aurora, CO, United States of America
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4
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Lin Z, Wei J, Hu Y, Pi D, Jiang M, Lang T. Caffeine Synthesis and Its Mechanism and Application by Microbial Degradation, A Review. Foods 2023; 12:2721. [PMID: 37509813 PMCID: PMC10380055 DOI: 10.3390/foods12142721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 07/10/2023] [Accepted: 07/10/2023] [Indexed: 07/30/2023] Open
Abstract
Caffeine is a metabolite derived from purine nucleotides, typically accounting for 2-5% of the dry weight of tea and 1-2% of the dry weight of coffee. In the tea and coffee plants, the main synthesis pathway of caffeine is a four-step sequence consisting of three methylation reactions and one nucleosidase reaction using xanthine as a precursor. In bacteria, caffeine degradation occurs mainly through the pathways of N-demethylation and C-8 oxidation. However, a study fully and systematically summarizing the metabolism and application of caffeine in microorganisms has not been established elsewhere. In the present study, we provide a review of the biosynthesis, microbial degradation, gene expression, and application of caffeine microbial degradation. The present review aims to further elaborate the mechanism of caffeine metabolism by microorganisms and explore the development prospects in this field.
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Affiliation(s)
- Zhipeng Lin
- School of Chemistry and Chemical Engineering, Guangxi Minzu University, Nanning 530008, China
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China
| | - Jian Wei
- Institute of Ecology, College of Urban and Environmental Sciences and Key Laboratory for Earth Surface Processes of Ministry of Education, Peking University, Beijing 100091, China
| | - Yongqiang Hu
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China
| | - Dujuan Pi
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China
| | - Mingguo Jiang
- School of Chemistry and Chemical Engineering, Guangxi Minzu University, Nanning 530008, China
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, School of Marine Sciences and Biotechnology, Guangxi Minzu University, Nanning 530008, China
| | - Tao Lang
- MNR Key Laboratory for Geo-Environmental Monitoring of Great Bay Area & Shenzhen Key Laboratory of Marine Bioresource and Eco-Environmental Science, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518071, China
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Prieto-Espinoza M, Di Chiara Roupert R, Belfort B, Weill S, Imfeld G. Reactive transport of micropollutants in laboratory aquifers undergoing transient exposure periods. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 856:159170. [PMID: 36198349 DOI: 10.1016/j.scitotenv.2022.159170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Revised: 09/26/2022] [Accepted: 09/28/2022] [Indexed: 06/16/2023]
Abstract
Groundwater quality is of increasing concern due to the ubiquitous occurrence of micropollutant mixtures. Stream-groundwater interactions near agricultural and urban areas represent an important entry pathway of micropollutants into shallow aquifers. Here, we evaluated the biotransformation of a micropollutant mixture (i.e., caffeine, metformin, atrazine, terbutryn, S-metolachlor and metalaxyl) during lateral stream water flow to adjacent groundwater. We used an integrative approach combining concentrations and transformation products (TPs) of the micropollutants, compound-specific isotope analysis (δ13C and δ15N), sequencing of 16S rRNA gene amplicons and reactive transport modeling. Duplicate laboratory aquifers (160 cm × 80 cm × 7 cm) were fed with stream water and subjected over 140 d to three successive periods of micropollutant exposures as pulse-like (6000 μg L-1) and constant (600 μg L-1) injections under steady-state conditions. Atrazine, terbutryn, S-metolachlor and metalaxyl persisted in both aquifers during all periods (<10 % attenuation). Metformin attenuation (up to 14 %) was only observed from 90 d onwards, suggesting enhanced degradation over time. In contrast, caffeine dissipated during all injection periods (>90 %), agreeing with fast degradation rates (t1/2 < 3 d) in parallel microcosm experiments and detection of TPs (theobromine and xanthine). Significant stable carbon isotope fractionation (Δδ13C ≥ 6.6 ‰) was observed for caffeine in both aquifers, whereas no enrichment in 15N occurred. A concentration dependence of caffeine biotransformation in the aquifers was further suggested by model simulations following Michaelis-Menten kinetics. Changes in bacterial community composition reflected long-term bacterial adaptation to micropollutant exposures. Altogether, the use of an integrative approach can help to understand the interplay of subsurface hydrochemistry, bacterial adaptations and micropollutants biotransformation during stream-groundwater interactions.
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Affiliation(s)
- Maria Prieto-Espinoza
- Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France
| | - Raphaël Di Chiara Roupert
- Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France
| | - Benjamin Belfort
- Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France
| | - Sylvain Weill
- Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France
| | - Gwenaël Imfeld
- Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France.
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Dearing MD, Kaltenpoth M, Gershenzon J. Demonstrating the role of symbionts in mediating detoxification in herbivores. Symbiosis 2022; 87:59-66. [PMID: 36164313 PMCID: PMC9499882 DOI: 10.1007/s13199-022-00863-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2022] [Accepted: 07/23/2022] [Indexed: 11/30/2022]
Abstract
AbstractPlant toxins constitute an effective defense against herbivorous animals. However, many herbivores have evolved adaptations to cope with dietary toxins through detoxification, excretion, sequestration, target site insensitivity and/or via behavioral avoidance. While these adaptations are often directly encoded in herbivore genomes, evidence is accumulating that microbial symbionts can reduce the dose of plant toxins by metabolizing or sequestering them prior to absorption by the herbivore. Here, we describe a few well-studied examples to assess such symbiont-mediated detoxification and showcase different approaches that have been used for their analyses. These include: (i) a host phenotypic route in which the symbiotic association is manipulated to reveal host fitness costs upon toxin exposure in the presence/absence of detoxifying symbionts, including function restoration after symbiont re-infection, (ii) a molecular microbiological approach that focuses on the identification and characterization of microbial genes involved in plant toxin metabolism, and (iii) an analytical chemical route that aims to characterize the conversion of the toxin to less harmful metabolites in vivo and link conversion to the activities of a detoxifying symbiont. The advantages and challenges of each approach are discussed, and it is argued that a multi-pronged strategy combining phenotypic, molecular, and chemical evidence is needed to unambiguously demonstrate microbial contributions to plant toxin reduction and the importance of these processes for host fitness. Given the interdisciplinary nature of the topic, we aim to provide a guideline to researchers interested in symbiont-mediated detoxification and hope to encourage future studies that contribute to a more comprehensive and mechanistic understanding of detoxification in herbivores and their symbionts.
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Affiliation(s)
- M. Denise Dearing
- School of Biological Sciences, University of Utah, Salt Lake City, UT 84112 USA
- Department of Biochemistry, Max Planck Institute for Chemical Ecology, Hans-Knöll-Str. 8, 07745 Jena, Germany
| | - Martin Kaltenpoth
- Department of Insect Symbiosis, Max Planck Institute for Chemical Ecology, Hans-Knöll-Str.8, 07745 Jena, Germany
| | - Jonathan Gershenzon
- Department of Biochemistry, Max Planck Institute for Chemical Ecology, Hans-Knöll-Str. 8, 07745 Jena, Germany
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Bhat SV, Maughan H, Cameron ADS, Yost CK. Phylogenomic analysis of the genus Delftia reveals distinct major lineages with ecological specializations. Microb Genom 2022; 8:mgen000864. [PMID: 36107145 PMCID: PMC9676026 DOI: 10.1099/mgen.0.000864] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2022] [Accepted: 06/15/2022] [Indexed: 04/01/2024] Open
Abstract
Delftia is a diverse betaproteobacterial genus with many strains having agricultural and industrial relevance, including plant-growth promotion, bioremediation of hydrocarbon-contaminated soils, and heavy metal immobilization. Delftia spp. are broadly distributed in the environment, and have been isolated from plant hosts as well as healthy and diseased animal hosts, yet the genetic basis of this ecological versatility has not been characterized. Here, we present a phylogenomic comparison of published Delftia genomes and show that the genus is divided into two well-supported clades: one 'Delftia acidovorans' clade with isolates from soils and plant rhizospheres, and a second 'Delftia lacustris and Delftia tsuruhatensis' clade with isolates from humans and sludge. The pan-genome inferred from 61 Delftia genomes contained over 28 000 genes, of which only 884 were found in all genomes. Analysis of industrially relevant functions highlighted the ecological versatility of Delftia and supported their role as generalists.
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Affiliation(s)
- Supriya V. Bhat
- Department of Biology, University of Regina, Regina, SK, Canada
- Institute for Microbial Systems and Society, University of Regina, Regina, SK, Canada
| | | | - Andrew D. S. Cameron
- Department of Biology, University of Regina, Regina, SK, Canada
- Institute for Microbial Systems and Society, University of Regina, Regina, SK, Canada
| | - Christopher K. Yost
- Department of Biology, University of Regina, Regina, SK, Canada
- Institute for Microbial Systems and Society, University of Regina, Regina, SK, Canada
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Kim CH, Park SJ, Yu JS, Lee DY. Interactive effect of post-harvest processing method, roasting degree, and brewing method on coffee metabolite profiles. Food Chem 2022; 397:133749. [PMID: 35901615 DOI: 10.1016/j.foodchem.2022.133749] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Revised: 07/03/2022] [Accepted: 07/18/2022] [Indexed: 11/19/2022]
Abstract
Our study aims to characterize metabolite profiles, varying by major determinants in brewed coffee as follows: three post-harvest processing, three roasting degrees, and two brewing methods for C. arabicacv. Geisha. The major discriminant factor was the roasting degree, explaining 58.84% of the total variance of metabolite profiles. Despite a lesser degree of influence, specific metabolite profiles were retained in temperature-based brewing (Light, 11.11%; Medium, 12.01%; Dark, 22.15%) and post-harvest processing (Light, 35.29%; Medium, 29.64%; Dark, 22.03%), respectively. The effect of pressure application on the coffee metabolome was significant only for the light roasted beans (9.88%). Of note, the post-harvest processing method was featured by norharman (anaerobic), pimelic acid (natural), and xanthine (washed). In addition, our study proposed novel compounds, DiHOMEs, associated with potential health benefits, which will step-up the coffee values and suggest future direction of the development of coffee processing.
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Affiliation(s)
- Chang-Ho Kim
- Department of Food and Animal Biotechnology, Seoul National University, Seoul, Republic of Korea
| | - Soo Jin Park
- Department of Agricultural Biotechnology, Seoul National University, Seoul, Republic of Korea
| | - Jeong Seok Yu
- Department of Agricultural Biotechnology, Seoul National University, Seoul, Republic of Korea
| | - Do Yup Lee
- Department of Food and Animal Biotechnology, Seoul National University, Seoul, Republic of Korea; Department of Agricultural Biotechnology, Seoul National University, Seoul, Republic of Korea; Center for Food and Bioconvergence, Research Institute for Agricultural and Life Sciences, Seoul National University, Seoul, Republic of Korea.
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Botti JMC, Martins EF, Franzin ML, Venzon M. Predation of Coffee Berry Borer by a Green Lacewing. NEOTROPICAL ENTOMOLOGY 2022; 51:160-163. [PMID: 34255264 DOI: 10.1007/s13744-021-00884-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Accepted: 05/17/2021] [Indexed: 06/13/2023]
Abstract
We report here for the first time, the predation of coffee berry borer (CBB) Hypothenemus hampei (Ferrari) by a green lacewing species, Chrysoperla externa (Hagen). We showed in laboratory the predator ability to access CBB galleries, remove pest immature stages, and prey on them. We also observed predation by third instar larvae on CBB adults. With this note, we add a new predator to the reported list of species still little explored of CBB control.
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Affiliation(s)
| | | | | | - Madelaine Venzon
- Agriculture and Livestock Research Enterprise of Minas Gerais (EPAMIG), Viçosa, MG, Brazil.
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Abstract
Coffee plants host several herbivorous species, but only few are considered pests. Brazil is the largest coffee producer of the world, and the two key coffee pests of the crop in the country are the coffee leaf miner Leucoptera coffeella and the coffee berry borer Hypothenemus hampei. However, in some regions or on specific conditions, species of mites and scales can also cause damage to coffee plants. Conventional management of coffee pests relies on chemical pesticides, and it is the most commonly used strategy in Brazil, but environmental problems, pest resistance, and toxicity-related issues have led coffee growers to search for alternatives for pest control. Agro-ecological strategies suitable to coffee cultivation can be adopted by farmers, based on plant diversification, in order to provide resources for natural enemies, such as nectar, pollen, shelter, microclimate conditions, and oviposition sites, thereby promoting conservation biological control. Here I revise these strategies and report the results from research in Brazil. I include results on agroforestry, use of cover crops, and non-crop plant management. These are complemented by curative measures based on the use of organic farming-approved pesticides that can be employed when the agro-ecological practices are not yet consolidated. I also present the cultural control method used by several coffee producers in Brazil to decrease coffee berry borer damage.
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Mejía-Alvarado FS, Ghneim-Herrera T, Góngora CE, Benavides P, Navarro-Escalante L. Structure and Dynamics of the Gut Bacterial Community Across the Developmental Stages of the Coffee Berry Borer, Hypothenemus hampei. Front Microbiol 2021; 12:639868. [PMID: 34335487 PMCID: PMC8323054 DOI: 10.3389/fmicb.2021.639868] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2020] [Accepted: 06/01/2021] [Indexed: 11/13/2022] Open
Abstract
The coffee berry borer (CBB); Hypothenemus hampei (Coleoptera: Curculionidae), is widely recognized as the major insect pest of coffee crops. Like many other arthropods, CBB harbors numerous bacteria species that may have important physiological roles in host nutrition, detoxification, immunity and protection. To date, the structure and dynamics of the gut-associated bacterial community across the CBB life cycle is not yet well understood. A better understanding of the complex relationship between CBB and its bacterial companions may provide new opportunities for insect control. In the current investigation, we analyzed the diversity and abundance of gut microbiota across the CBB developmental stages under field conditions by using high-throughput Illumina sequencing of the 16S ribosomal RNA gene. Overall, 15 bacterial phyla, 38 classes, 61 orders, 101 families and 177 genera were identified across all life stages, including egg, larva 1, larva 2, pupa, and adults (female and male). Proteobacteria and Firmicutes phyla dominated the microbiota along the entire insect life cycle. Among the 177 genera, the 10 most abundant were members of Ochrobactrum (15.1%), Pantoea (6.6%), Erwinia (5.7%), Lactobacillus (4.3%), Acinetobacter (3.4%), Stenotrophomonas (3.1%), Akkermansia (3.0%), Agrobacterium (2.9%), Curtobacterium (2.7%), and Clostridium (2.7%). We found that the overall bacterial composition is diverse, variable within each life stage and appears to vary across development. About 20% of the identified OTUs were shared across all life stages, from which 28 OTUs were consistently found in all life stage replicates. Among these OTUs there are members of genera Pantoea, Erwinia, Agrobacterium, Ochrobactrum, Pseudomonas, Acinetobacter, Brachybacterium, Sphingomonas and Methylobacterium, which can be considered as the gut-associated core microbiota of H. hampei. Our findings bring additional data to enrich the understanding of gut microbiota in CBB and its possible use for development of insect control strategies.
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Affiliation(s)
- Fernan Santiago Mejía-Alvarado
- Department of Entomology, National Coffee Research Center (Cenicafe), Manizales, Colombia.,Departamento de Ciencias Biológicas, Universidad Icesi, Cali, Colombia
| | | | - Carmenza E Góngora
- Department of Entomology, National Coffee Research Center (Cenicafe), Manizales, Colombia
| | - Pablo Benavides
- Department of Entomology, National Coffee Research Center (Cenicafe), Manizales, Colombia
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