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Journal articles on the topic 'Fruit microbiome'

Author: Grafiati

Published: 4 June 2025

Last updated: 15 July 2025

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1

Wu, Wenneng. "STRUCTURE AND FUNCTION OF THE FRUIT MICROBIOME IN HEALTHY AND DISEASED KIWIFRUIT." Pakistan Journal of Agricultural Sciences 56, no. 03 (2019): 577–85. http://dx.doi.org/10.21162/pakjas/19.8820.

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The fruit surface is an infection court where foodborne pathogens compete with indigenous microbiota for microsites to invade the fruits for nutrients acquisition. However, our current understanding of the structure and functions of fruit microbiome visa-vis postharvest pathogen infection is still nascent. Here, we sequenced the metagenomic DNA to understand the structural and functional attributes of healthy and diseased kiwifruit microbiome. The healthy fruits exhibited higher microbial diversity and distinct microbiome composition compared with diseased fruits. The microbiome of diseased fr

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Biasi, Antonio, V. Yeka Zhimo, Ajay Kumar, et al. "Changes in the Fungal Community Assembly of Apple Fruit Following Postharvest Application of the Yeast Biocontrol Agent Metschnikowia fructicola." Horticulturae 7, no. 10 (2021): 360. http://dx.doi.org/10.3390/horticulturae7100360.

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Recently, increasing focus has been placed on exploring fruit microbiomes and their association with their hosts. Investigation of the fruit surface microbiome of apple has revealed variations in the composition and structure depending on management practices, phenological stages, and spatial distribution on the fruit itself. However, the fate of the fruit surface microbiome assembly and dynamics in apple following interventions such as the application of biocontrol agents remains unknown. The objective of the study was to explore the effect of a postharvest application of a yeast biocontrol a

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Sangiorgio, Daniela, Antonio Cellini, Francesco Spinelli, et al. "Does Organic Farming Increase Raspberry Quality, Aroma and Beneficial Bacterial Biodiversity?" Microorganisms 9, no. 8 (2021): 1617. http://dx.doi.org/10.3390/microorganisms9081617.

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Plant-associated microbes can shape plant phenotype, performance, and productivity. Cultivation methods can influence the plant microbiome structure and differences observed in the nutritional quality of differently grown fruits might be due to variations in the microbiome taxonomic and functional composition. Here, the influence of organic and integrated pest management (IPM) cultivation on quality, aroma and microbiome of raspberry (Rubus idaeus L.) fruits was evaluated. Differences in the fruit microbiome of organic and IPM raspberry were examined by next-generation sequencing and bacterial

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Li, Fei, Hongjun Lyu, Henan Li, Kuanling Xi, Yin Yi, and Yubin Zhang. "Domestication and Genetic Improvement Alter the Symbiotic Microbiome Structure and Function of Tomato Leaf and Fruit Pericarp." Microorganisms 12, no. 7 (2024): 1351. http://dx.doi.org/10.3390/microorganisms12071351.

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Many studies have attempted to explore the changes in the structure and function of symbiotic microbiomes, as well as the underlying genetic mechanism during crop domestication. However, most of these studies have focused on crop root microbiomes, while those on leaf and fruit are rare. In this study, we generated a comprehensive dataset including the metagenomic (leaf) and metatranscriptomic (fruit pericarp in the orange stage) data of hundreds of germplasms from three tomato clades: Solanum pimpinellifolium (PIM), cherry tomato (S. lycopersicum var. cerasiforme) (CER), and S. lycopersicum gr

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Bösch, Yvonne, Elisabeth Britt, Sarah Perren, Andreas Naef, Jürg E. Frey, and Andreas Bühlmann. "Dynamics of the Apple Fruit Microbiome after Harvest and Implications for Fruit Quality." Microorganisms 9, no. 2 (2021): 272. http://dx.doi.org/10.3390/microorganisms9020272.

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The contribution of the apple microbiome to the production chain of apple was so far largely unknown. Here, we describe the apple fruit microbiome and influences on its composition by parameters such as storage season, storage duration, storage technology, apple variety, and plant protection schemes. A combined culturing and metabarcoding approach revealed significant differences in the abundance, composition, and diversity of the apple fruit microbiome. We showed that relatively few genera contribute a large portion of the microbiome on fruit and that the fruit microbiome changes during the s

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Verma, Sargam, Lucas Carvalho Basilio Azevedo, Jyoti Pandey, et al. "Microbial Intervention: An Approach to Combat the Postharvest Pathogens of Fruits." Plants 11, no. 24 (2022): 3452. http://dx.doi.org/10.3390/plants11243452.

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Plants host diverse microbial communities, which undergo a complex interaction with each other. Plant-associated microbial communities provide various benefits to the host directly or indirectly, viz. nutrient acquisition, protection from pathogen invaders, mitigation from different biotic and abiotic stress. Presently, plant-associated microbial strains are frequently utilized as biofertilizers, biostimulants and biocontrol agents in greenhouse and field conditions and have shown satisfactory results. Nowadays, the plant/fruit microbiome has been employed to control postharvest pathogens and

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Hendrycks, Wouter, Nele Mullens, Jackline Bakengesa, et al. "Deterministic and stochastic effects drive the gut microbial diversity in cucurbit-feeding fruit flies (Diptera, Tephritidae)." PLOS ONE 20, no. 1 (2025): e0313447. https://doi.org/10.1371/journal.pone.0313447.

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Insect diversity is closely linked to the evolution of phytophagy, with most phytophagous insects showing a strong degree of specialisation for specific host plants. Recent studies suggest that the insect gut microbiome might be crucial in facilitating the dietary (host plant) range. This requires the formation of stable insect-microbiome associations, but it remains largely unclear which processes govern the assembly of insect microbiomes. In this study, we investigated the role of deterministic and stochastic processes in shaping the assembly of the larval microbiome of three tephritid fruit

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Riopelle, Jade C., Amirhossein Shamsaddini, Myndi G. Holbrook, et al. "Sex differences and individual variability in the captive Jamaican fruit bat (Artibeus jamaicensis) intestinal microbiome and metabolome." Scientific Reports 14, no. 1 (2024): 3381. https://doi.org/10.5281/zenodo.13433022.

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(Uploaded by Plazi for the Bat Literature Project) Abstract The intestinal microbiome plays an important role in mammalian health, disease, and immune function. In light of this function, recent studies have aimed to characterize the microbiomes of various bat species, which are noteworthy for their roles as reservoir hosts for several viruses known to be highly pathogenic in other mammals. Despite ongoing bat microbiome research, its role in immune function and disease, especially the effects of changes in the microbiome on host health, remains nebulous. Here, we describe a novel methodology

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Riopelle, Jade C., Amirhossein Shamsaddini, Myndi G. Holbrook, et al. "Sex differences and individual variability in the captive Jamaican fruit bat (Artibeus jamaicensis) intestinal microbiome and metabolome." Scientific Reports 14, no. 1 (2024): 3381. https://doi.org/10.5281/zenodo.13433022.

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(Uploaded by Plazi for the Bat Literature Project) Abstract The intestinal microbiome plays an important role in mammalian health, disease, and immune function. In light of this function, recent studies have aimed to characterize the microbiomes of various bat species, which are noteworthy for their roles as reservoir hosts for several viruses known to be highly pathogenic in other mammals. Despite ongoing bat microbiome research, its role in immune function and disease, especially the effects of changes in the microbiome on host health, remains nebulous. Here, we describe a novel methodology

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10

Riopelle, Jade C., Amirhossein Shamsaddini, Myndi G. Holbrook, et al. "Sex differences and individual variability in the captive Jamaican fruit bat (Artibeus jamaicensis) intestinal microbiome and metabolome." Scientific Reports 14, no. 1 (2024): 3381. https://doi.org/10.5281/zenodo.13433022.

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(Uploaded by Plazi for the Bat Literature Project) Abstract The intestinal microbiome plays an important role in mammalian health, disease, and immune function. In light of this function, recent studies have aimed to characterize the microbiomes of various bat species, which are noteworthy for their roles as reservoir hosts for several viruses known to be highly pathogenic in other mammals. Despite ongoing bat microbiome research, its role in immune function and disease, especially the effects of changes in the microbiome on host health, remains nebulous. Here, we describe a novel methodology

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11

Riopelle, Jade C., Amirhossein Shamsaddini, Myndi G. Holbrook, et al. "Sex differences and individual variability in the captive Jamaican fruit bat (Artibeus jamaicensis) intestinal microbiome and metabolome." Scientific Reports 14, no. 1 (2024): 3381. https://doi.org/10.5281/zenodo.13433022.

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(Uploaded by Plazi for the Bat Literature Project) Abstract The intestinal microbiome plays an important role in mammalian health, disease, and immune function. In light of this function, recent studies have aimed to characterize the microbiomes of various bat species, which are noteworthy for their roles as reservoir hosts for several viruses known to be highly pathogenic in other mammals. Despite ongoing bat microbiome research, its role in immune function and disease, especially the effects of changes in the microbiome on host health, remains nebulous. Here, we describe a novel methodology

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12

Raza, Muhammad Fahim, Zhichao Yao, Shuai Bai, Zhaohui Cai, and Hongyu Zhang. "Tephritidae fruit fly gut microbiome diversity, function and potential for applications." Bulletin of Entomological Research 110, no. 4 (2020): 423–37. http://dx.doi.org/10.1017/s0007485319000853.

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AbstractThe family Tephritidae (order: Diptera), commonly known as fruit flies, comprises a widely distributed group of agricultural pests. The tephritid pests infest multiple species of fruits and vegetables, resulting in huge crop losses. Here, we summarize the composition and diversity of tephritid gut-associated bacteria communities and host intrinsic and environmental factors that influence the microbiome structures. Diverse members of Enterobacteriaceae, most commonly Klebsiella and Enterobacter bacteria, are prevalent in fruit flies guts. Roles played by gut bacteria in host nutrition,

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Kifle, Dawit Raga, Ketema Bedanie Bacha, Reda Nemo Hora, and Lata Lachisa Likasa. "Evaluation of microbiome and physico-chemical profiles of fresh fruits of Musa paradisiaca, Citrus sinensis and Carica papaya at different ripening stages: Implication to quality and safety management." PLOS ONE 19, no. 1 (2024): e0297574. http://dx.doi.org/10.1371/journal.pone.0297574.

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Introduction The ripening of fleshy fruits is a developmental process that involves changes in color, texture, aroma, nutrients, and diversity of microbiomes. Some microorganisms, specially, bacteria and molds are responsible for postharvest spoilage of fruits. Thus, this study is aimed at evaluating the alterations in microbiome and physico-chemical properties of selected fruits at different ripening stages. Methods Totally, 108 fresh fruit samples of Musa paradisiaca, Citrus sinensis and Carica papaya at three ripening stages were collected and processed in this study. The biochemical method

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14

Fan, Hsien-Yu, Yu-Tang Tung, Yu-Chen S. H. Yang, et al. "Maternal Vegetable and Fruit Consumption during Pregnancy and Its Effects on Infant Gut Microbiome." Nutrients 13, no. 5 (2021): 1559. http://dx.doi.org/10.3390/nu13051559.

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Maternal nutrition intake during pregnancy may affect the mother-to-child transmission of bacteria, resulting in gut microflora changes in the offspring, with long-term health consequences in later life. Longitudinal human studies are lacking, as only a small amount of studies showing the effect of nutrition intake during pregnancy on the gut microbiome of infants have been performed, and these studies have been mainly conducted on animals. This pilot study explores the effects of high or low fruit and vegetable gestational intake on the infant microbiome. We enrolled pregnant women with a com

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Sardaro, Maria Luisa Savo, Veronika Grote, Jennifer Baik, Marco Atallah, Katherine Ryan Amato, and Melinda Ring. "Effects of Vegetable and Fruit Juicing on Gut and Oral Microbiome Composition." Nutrients 17, no. 3 (2025): 458. https://doi.org/10.3390/nu17030458.

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Background: In recent years, juicing has often been promoted as a convenient way to increase fruit and vegetable intake, with juice-only diets marketed for digestive cleansing and overall health improvement. However, juicing removes most insoluble fiber, which may diminish the health benefits of whole fruits and vegetables. Lower fiber intake can alter the microbiota, affecting metabolism, immunity, and mental health, though little is known about juicing’s specific effects on the microbiota. This study addresses this gap by exploring how juicing impacts gut and oral microbiome composition in a

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Heminger, Ariel R., Lisa K. Belden, Jacob N. Barney, Brian D. Badgley, and David C. Haak. "Horsenettle (Solanum carolinense) fruit bacterial communities are not variable across fine spatial scales." PeerJ 9 (November 8, 2021): e12359. http://dx.doi.org/10.7717/peerj.12359.

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Fruit house microbial communities that are unique from the rest of the plant. While symbiotic microbial communities complete important functions for their hosts, the fruit microbiome is often understudied compared to other plant organs. Fruits are reproductive tissues that house, protect, and facilitate the dispersal of seeds, and thus they are directly tied to plant fitness. Fruit microbial communities may, therefore, also impact plant fitness. In this study, we assessed how bacterial communities associated with fruit of Solanum carolinense, a native herbaceous perennial weed, vary at fine sp

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Piombo, Edoardo, Ahmed Abdelfattah, Yaara Danino, et al. "Characterizing the Fungal Microbiome in Date (Phoenix dactylifera) Fruit Pulp and Peel from Early Development to Harvest." Microorganisms 8, no. 5 (2020): 641. http://dx.doi.org/10.3390/microorganisms8050641.

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Date palm (Phoenix dactylifera) is considered to be a highly important food crop in several African and Middle Eastern countries due to its nutritional value and health-promoting properties. Microbial contamination of dates has been of concern to consumers, but very few works have analyzed in detail the microbial load of the different parts of date fruit. In the present work, we characterized the fungal communities of date fruit using a metagenomic approach, analyzing the data for differences between microbial populations residing in the pulp and peel of “Medjool” dates at the different stages

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18

van der Merwe, Marie, Damien Moore, Jessica L. Hill, et al. "The Impact of a Dried Fruit and Vegetable Supplement and Fiber Rich Shake on Gut and Health Parameters in Female Healthcare Workers: A Placebo-Controlled, Double-Blind, Randomized Clinical Trial." Microorganisms 9, no. 4 (2021): 843. http://dx.doi.org/10.3390/microorganisms9040843.

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Aim: Phytochemicals from fruits and vegetables are known to reduce inflammation and improve overall health. The objective of this study was to determine the effect of a fruit and vegetable concentrate (FVC) and high fiber component on the gut microbiome in an overweight/obese, female population. Methods: The study was a randomized, double blind, placebo-controlled trial with 57 asymptomatic, pre-menopausal, overweight/obese females between 25–50 years of age working in healthcare. Blood and fecal samples were collected before and after two, four and five months of daily supplementation. Metabo

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19

Diskin, Sonia, Oleg Feygenberg, Dalia Maurer, Samir Droby, Dov Prusky, and Noam Alkan. "Microbiome Alterations Are Correlated with Occurrence of Postharvest Stem-End Rot in Mango Fruit." Phytobiomes Journal 1, no. 3 (2017): 117–27. http://dx.doi.org/10.1094/pbiomes-05-17-0022-r.

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During storage and ripening, mango fruit develop stem-end rots (SER) that reduce quality, causing significant losses of harvested fruit. The presented results indicate that pathogens, endophytically colonizing the fruit’s stem end, awaken during fruit ripening and cause SER. The main pathogens causing SER in mango grown in Israel were found to be Alternaria alternata and Lasiodiplodia theobromae. Confocal analysis of the sliced stems indicated that the pathogens endophytically colonize the phloem of the fruit’s stem end; they branch into the fruit parenchyma when the pathogen switches to its a

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Majumder, Rajib, Brodie Sutcliffe, Phillip W. Taylor, and Toni A. Chapman. "Microbiome of the Queensland Fruit Fly through Metamorphosis." Microorganisms 8, no. 6 (2020): 795. http://dx.doi.org/10.3390/microorganisms8060795.

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Bactrocera tryoni (Froggatt) (Queensland fruit fly, or “Qfly”) is a highly polyphagous tephritid fruit fly and a serious economic pest in Australia. Qfly biology is intimately linked to the bacteria and fungi of its microbiome. While there are numerous studies of the microbiome in larvae and adults, the transition of the microbiome through the pupal stage remains unknown. To address this knowledge gap, we used high-throughput Next-Generation Sequencing (NGS) to examine microbial communities at each developmental stage in the Qfly life cycle, targeting the bacterial 16S rRNA and fungal ITS regi

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Venu, I., Z. Durisko, J. Xu, and R. Dukas. "Social attraction mediated by fruit flies' microbiome." Journal of Experimental Biology 217, no. 8 (2014): 1346–52. http://dx.doi.org/10.1242/jeb.099648.

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Venu, I., Z. Durisko, J. Xu, and R. Dukas. "Social attraction mediated by fruit fliesÕ microbiome." Journal of Experimental Biology 217 (June 5, 2014): 1346–52. https://doi.org/10.1242/jeb.099648.

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Xu, Weifang, Fei Wang, Ruolin Wang, et al. "Seasonal Characterization of the Endophytic Fungal Microbiome of Mulberry (Morus spp.) Cultivars Resistant and Susceptible to Sclerotiniosis." Microorganisms 9, no. 10 (2021): 2052. http://dx.doi.org/10.3390/microorganisms9102052.

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The endophytic microbiome is thought to play an important role in promoting plant growth and health. Using culture-independent and culture-dependent protocols, this study characterized the seasonal shifts in the endophytic fungal microbiota of four mulberry (Morus L.) cultivars having different levels of resistance to mulberry fruit sclerotiniosis. Core endophytes can be obtained by two approaches, and they were divided into two clusters by season. Spring samples harbored higher operational taxonomic units (OTUs) and α-diversity, while autumn samples had more sequences or isolates of the funga

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Takahashi, Hideki, Keisuke Takashima, Shuhei Miyashita, et al. "Managing the Microbiome on the Surface of Tomato Fruit by Treatment of Tomato Plants with Non-Thermal Atmospheric-Pressure Plasma During Cultivation." Horticulturae 11, no. 3 (2025): 276. https://doi.org/10.3390/horticulturae11030276.

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The treatment of plants with non-thermal atmospheric-pressure plasma impacts several aspects of plant life. However, the effects of long-term plasma irradiation on crop cultivation are not enough investigated. The purpose of the current study is to address this subject. The growth of tomato plants, the preservation status of harvested tomato fruits, and the microbial community on the surface of harvested tomato fruits were compared between 12 long-term plasma-irradiated plants and 12 air-irradiated plants with statistical analyses. The growth parameters (plant height, number of leaves and frui

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Galsurker, Ortal, Sonia Diskin, Dalia Maurer, Oleg Feygenberg, and Noam Alkan. "Fruit Stem-End Rot." Horticulturae 4, no. 4 (2018): 50. http://dx.doi.org/10.3390/horticulturae4040050.

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After harvest, the fruit ripens and stem-end rot (SER) starts to develop, leading to significant fruit losses. SER is caused by diverse pathogenic fungi that endophytically colonize the stem during fruit development in the orchard or field and remain quiescent until the onset of fruit ripening. During the endophytic-like stage, the pathogenic fungus colonizes the phloem and xylem of the fruit stem-end; after fruit ripening, the fungus converts to a necrotrophic lifestyle, while colonizing the fruit parenchyma, and causes SER. The fruit stem-end is colonized not only by pathogenic fungi, but al

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Li, Yanyan, Tao Zhang, and Grace Chen. "Flavonoids and Colorectal Cancer Prevention." Antioxidants 7, no. 12 (2018): 187. http://dx.doi.org/10.3390/antiox7120187.

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Colorectal cancer (CRC) is the third most common cancer, but despite advances in treatment, it remains the second most common cause of cancer-related mortality. Prevention may, therefore, be a key strategy in reducing colorectal cancer deaths. Given reports of an inverse association between fruit and vegetable consumption with colorectal cancer risk, there has been significant interest in understanding the metabolism and bioactivity of flavonoids, which are highly abundant in fruits and vegetables and account for their pigmentation. In this review, we discuss host and microbiota-mediated metab

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Yau, Raymond, Christina Pavloudi, Yingying Zeng, Jimmy Saw, and Ioannis Eleftherianos. "Infection with the entomopathogenic nematodes Steinernema alters the Drosophila melanogaster larval microbiome." PLOS One 20, no. 5 (2025): e0323657. https://doi.org/10.1371/journal.pone.0323657.

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The fruit fly Drosophila melanogaster is a vital model for studying the microbiome due to the availability of genetic resources and procedures. To understand better the importance of microbial composition in shaping immune modulation, we can investigate the role of the microbiota through parasitic infection. For this, we use entomopathogenic nematodes (EPN) of the genus Steinernema which exhibit remarkable ability to efficiently infect a diverse array of insect species, facilitated by the mutualistic bacteria Xenorhabdus found within their gut. To examine the microbiome changes in D. melanogas

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Goforth, Madison, Margarethe A. Cooper, Andrew S. Oliver, et al. "Bacterial community shifts of commercial apples, oranges, and peaches at different harvest points across multiple growing seasons." PLOS ONE 19, no. 4 (2024): e0297453. http://dx.doi.org/10.1371/journal.pone.0297453.

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Assessing the microbes present on tree fruit carpospheres as the fruit enters postharvest processing could have useful applications, as these microbes could have a major influence on spoilage, food safety, verification of packing process controls, or other aspects of processing. The goal of this study was to establish a baseline profile of bacterial communities associated with apple (pome fruit), peach (stone fruit), and Navel orange (citrus fruit) at harvest. We found that commercial peaches had the greatest bacterial richness followed by oranges then apples. Time of harvest significantly cha

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Vaughan, Michael Joe, Thomas Mitchell, and Brian B. McSpadden Gardener. "What's Inside That Seed We Brew? A New Approach To Mining the Coffee Microbiome." Applied and Environmental Microbiology 81, no. 19 (2015): 6518–27. http://dx.doi.org/10.1128/aem.01933-15.

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ABSTRACTCoffee is a critically important agricultural commodity for many tropical states and is a beverage enjoyed by millions of people worldwide. Recent concerns over the sustainability of coffee production have prompted investigations of the coffee microbiome as a tool to improve crop health and bean quality. This review synthesizes literature informing our knowledge of the coffee microbiome, with an emphasis on applications of fruit- and seed-associated microbes in coffee production and processing. A comprehensive inventory of microbial species cited in association with coffee fruits and s

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Kim, Judith, Minyi Lee, Brittany Baldwin-Hunter, et al. "Minimal Associations between Short-Term Dietary Intake and Salivary Microbiome Composition." Microorganisms 9, no. 8 (2021): 1739. http://dx.doi.org/10.3390/microorganisms9081739.

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Background: Increasing evidence points to the esophageal microbiome as an important co-factor in esophageal neoplasia. Esophageal microbiome composition is strongly influenced by the oral microbiome. Salivary microbiome assessment has emerged as a potential non-invasive tool to identify patients at risk for esophageal cancer, but key host and environmental factors that may affect the salivary microbiome have not been well-defined. This study aimed to evaluate the impact of short-term dietary intake on salivary microbiome composition. Methods: Saliva samples were collected from 69 subjects prio

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Hong, Mee Young, Pia Asuncion, Changqi Liu, et al. "Effects of Mango Fruit Consumption on the Diversity of the Gut Microbiome." Current Developments in Nutrition 6, Supplement_1 (2022): 1010. http://dx.doi.org/10.1093/cdn/nzac069.015.

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Abstract Objectives Some individual fruits have been widely researched for their effects on overall health and correlations with chronic diseases, highlighting the benefits and importance of incorporation of fruit in the diet. Beneficial effects of mango supplementation on metabolic diseases have been detected, however, research of mango consumption on the gut microbiome is sparse. Therefore, this study examined the effect of fresh mango consumption on the diversity of the gut microbiome. Methods In a 12-week crossover design study, 27 participants (16 males and 11 females, age 26.0 ± 8.1 year

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Qi, Meijun, Xuedong Shi, Wenlong Huang, et al. "Microbiome and Metabolome Illustrate the Correlations Between Endophytes and Flavor Metabolites in Passiflora ligularis Fruit Juice." International Journal of Molecular Sciences 26, no. 5 (2025): 2151. https://doi.org/10.3390/ijms26052151.

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This study investigates the interplay between volatile and non-volatile flavor metabolites and endophytic microbial communities during three developmental stages of Passiflora ligularis fruit juice. Using bioinformatics and metabolomics, we characterize microbial diversity and metabolic variations to understand flavor development. A total of 1490 bacterial and 1158 fungal operational taxonomic units (OTUs) were identified. Young fruits had higher microbial diversity, dominated by Proteobacteria and Firmicutes (bacteria) and Ascomycota and Basidiomycota (fungi). As the fruit matured, Proteobact

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Yáñez, Francisca, Zaida Soler, Manon Oliero, et al. "Integrating Dietary Data into Microbiome Studies: A Step Forward for Nutri-Metaomics." Nutrients 13, no. 9 (2021): 2978. http://dx.doi.org/10.3390/nu13092978.

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Diet is recognised as the main driver of changes in gut microbiota. However, linking habitual dietary intake to microbiome composition and activity remains a challenge, leaving most microbiome studies with little or no dietary information. To fill this knowledge gap, we conducted two consecutive studies (n = 84: a first pilot study (n = 40) to build a web-based, semi-quantitative simplified FFQ (sFFQ) based on three 24-h dietary recalls (24HRs); a second study (n = 44) served to validate the newly developed sFFQ using three 24HRs as reference method and to relate gut microbiome profiling (16S

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Coleman, Sara L., and Odette M. Shaw. "Progress in the understanding of the pathology of allergic asthma and the potential of fruit proanthocyanidins as modulators of airway inflammation." Food & Function 8, no. 12 (2017): 4315–24. http://dx.doi.org/10.1039/c7fo00789b.

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Nur Aina Mardhiah Zolkhairi and Ismatul Nurul Asyikin Ismail. "Soil Microbiome and Banana Plant Diseases: A Review." Malaysian Journal of Science Health & Technology 8, no. 1 (2022): 85–91. http://dx.doi.org/10.33102/2022246.

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Soil microbiomes not only benefits the ecosystem, such as facilitating nitrogen cycling, but they can also cause unhealthy plant or even death since some of the microbes are pathogens. The crops yield will significantly decrease if the pathogens are still assembled in the soil, which could cause losses to farmers. Previous studies have acknowledged several aspects of the roles of soil microbiome and how soil variations can affect the availability and functions of the microbes. Banana is one of the most popular, commonly consumed, and essential fruit crops worldwide. Nevertheless, the accumulat

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Nur Aina Mardhiah Zolkhairi and Ismatul Nurul Asyikin Ismail. "Soil Microbiome and Banana Plant Diseases: A Review." Malaysian Journal of Science Health & Technology 8, no. 1 (2022): 85–91. http://dx.doi.org/10.33102/mjosht.v8i1.246.

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Soil microbiomes not only benefits the ecosystem, such as facilitating nitrogen cycling, but they can also cause unhealthy plant or even death since some of the microbes are pathogens. The crops yield will significantly decrease if the pathogens are still assembled in the soil, which could cause losses to farmers. Previous studies have acknowledged several aspects of the roles of soil microbiome and how soil variations can affect the availability and functions of the microbes. Banana is one of the most popular, commonly consumed, and essential fruit crops worldwide. Nevertheless, the accumulat

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Greiner, Allen K., Rao V. L. Papineni, and Shahid Umar. "Chemoprevention in Gastrointestinal Physiology and Disease. Natural products and microbiome." American Journal of Physiology-Gastrointestinal and Liver Physiology 307, no. 1 (2014): G1—G15. http://dx.doi.org/10.1152/ajpgi.00044.2014.

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The human intestinal tract harbors a complex ecosystem of commensal bacteria that play a fundamental role in the well-being of their host. There is a general consensus that diet rich in plant-based foods has many advantages in relation to the health and well-being of an individual. In adults, diets that have a high proportion of fruit and vegetables and a low consumption of meat are associated with a highly diverse microbiota and are defined by a greater abundance of Prevotella compared with Bacteroides, whereas the reverse is associated with a diet that contains a low proportion of plant-base

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Liu, Yanjun, Jianmei Yu, Fang Zhu, et al. "Function of Cytochrome P450s and Gut Microbiome in Biopesticide Adaptation of Grapholita molesta on Different Host Diets." International Journal of Molecular Sciences 24, no. 20 (2023): 15435. http://dx.doi.org/10.3390/ijms242015435.

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Insects that feed on various host plants possess diverse xenobiotic adaptations; however, the underlying mechanisms are poorly understood. In the present study, we used Grapholita molesta, which shifts feeding sites from peach shoots to apple fruits, as a model to explore the effects of shifts in host plant diet on the profiles of cytochrome P450s and the gut bacteria microbiome, as well as their effects on biopesticide adaptation. We found that the sensitivity of the fruit-feeding G. molesta to emamectin benzoate biopesticide was significantly lower than that of the shoot-feeding larvae. We a

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Arina Amalia Putri, Maria Sugiharti, Alfred Michael, Anja Meryandini, and Antonius Suwanto. "Microbiome Structure Analysis of Oil Palm Pollinator Elaeidobius kamerunicus (Coleoptera; Curculionidae)." HAYATI Journal of Biosciences 30, no. 6 (2023): 1155–66. http://dx.doi.org/10.4308/hjb.30.6.1155-1166.

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The pollination of oil palm by Elaeidobius kamerunicus leads to an increase of over 70% in countries such as India, Malaysia, and Indonesia. The impact of insect-microbiome interactions on the pollination activity and fitness of E. kamerunicus is unknown. Our study aimed to gain insight into the bacterial communities of E. kamerunicus from two different sites with high and low fruit set percentages, using culturable and Terminal Restriction Fragment Length Polymorphism (T-RFLP) analysis. Our result revealed distinctive T-RFs profiles in E. kamerunicus from two different sites. Additionally, th

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Skendzic, Elizabeth, and Cynthia Keler. "Fruit Flies & the Gut Microbiome: Redesign-Your-Bacteria Lab Exercise." American Biology Teacher 81, no. 1 (2019): 47–51. http://dx.doi.org/10.1525/abt.2019.81.1.47.

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This lab introduces students to experimental design in an inquiry lab exercise that investigates the gut microbiome, basic microbiology techniques, and the broader topic of bacteriology. Fruit flies are used as a model system to study the impact that foods, food additives, and/or antibiotics have on the gut microbiome. One of the major bacteria in the guts of fruit flies is Lactobacillus, which is easy to grow in the lab. This exercise is done in three consecutive lab sessions. During Lab 1, students prepare a standard nutritive medium that has been mixed with a substance of their choice, add

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Almatani, Mohammed F., Giovanni Rompato, Eliza C. Stewart, et al. "Dynamic Microbiome Responses to Structurally Diverse Anthocyanin-Rich Foods in a Western Diet Context." Nutrients 17, no. 13 (2025): 2201. https://doi.org/10.3390/nu17132201.

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Background/Objectives: Anthocyanin (ACN)-rich foods are known to influence the gut microbiota composition, but the temporal dynamics and structural specificity of these effects remain poorly understood. This study investigated how distinct ACN-rich fruit supplements impact the gut microbiome over time in the context of a Western-style diet. We hypothesized that ACN-induced microbial shifts would occur rapidly, differ by ACN source, and require continued intake to persist. Methods: C57BL/6J mice were fed the total Western diet (TWD) supplemented with freeze-dried powders from bilberry (BB), tar

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Copoiu, Dana S., Paris Lavin, Corina Itcus, and Cristina Purcarea. "Patterns of Insect Distribution in Fruit Trees of South Romania and Their Role as Bacterial Vectors." Diversity 17, no. 4 (2025): 295. https://doi.org/10.3390/d17040295.

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This study is the first investigation of tree–insect–bacteria interactions in southern Romania, documenting the distribution of 19 insect species across various fruit trees and their insect-associated bacterial diversity. Insect species were identified through DNA barcoding, while bacterial communities in Anthomyia, Botanophila, Drosophila, and Scaptomyza insects were analyzed via 16S rRNA gene sequencing. Insect diversity varied across apple, cherry, plum, peach, and quince trees, with most species showing tree-specific distribution, except for Drosophila melanogaster, which was found on all

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Kusstatscher, Peter, Tomislav Cernava, Ahmed Abdelfattah, Jarishma Gokul, Lise Korsten, and Gabriele Berg. "Microbiome approaches provide the key to biologically control postharvest pathogens and storability of fruits and vegetables." FEMS Microbiology Ecology 96, no. 7 (2020). http://dx.doi.org/10.1093/femsec/fiaa119.

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ABSTRACT Microbes play an important role in plants and interact closely with their host starting from sprouting seeds, continuing during growth and after harvest. The discovery of their importance for plant and postharvest health initiated a biotechnological development of various antagonistic bacteria and fungi for disease control. Nevertheless, their application often showed inconsistent effects. Recently, high-throughput sequencing-based techniques including advanced microscopy reveal fruits and vegetables as holobionts. At harvest, all fruits and vegetables harbor a highly abundant and spe

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Kithan-Lundquist, Roselane, Hannah M. McMillan, Sheng-Yang He, and George W. Sundin. "Temporal fruit microbiome and immunity dynamics in post-harvest apple (Malus x domestica)." Horticulture Research, February 25, 2025. https://doi.org/10.1093/hr/uhaf063.

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Abstract The plant immune response plays a central role in maintaining a well-balanced and healthy microbiome for plant health. However, insights on how the fruit immune response and the fruit microbiome influence fruit health after harvest are limited. We investigated the temporal dynamics of the fruit microbiota and host defense gene expression patterns during post-harvest storage of apple fruits at room temperature. Our results demonstrate a temporal dynamic shift in both bacterial and fungal community composition during post-harvest storage that coincides with a steep-decline in host defen

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Farwell, Lauren Helen, Matevz Papp‐Rupar, Greg Deakin, Naresh Magan, and Xiangming Xu. "Investigating the inoculum dynamics of Cladosporium on the surface of raspberry fruits and in the air." Environmental Microbiology 26, no. 3 (2024). http://dx.doi.org/10.1111/1462-2920.16613.

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AbstractRaspberry production is under threat from the emerging fungal pathogenic genus Cladosporium. We used amplicon‐sequencing, coupled with qPCR, to investigate how fruit age, fruit location within a polytunnel, polytunnel location and sampling date affected the fruit epiphytic microbiome. Fruit age was the most important factor impacting the fungal microbiome, followed by sampling date and polytunnel location. In contrast, polytunnel location and fruit age were important factors impacting the bacterial microbiome composition, followed by the sampling date. The within‐tunnel location had a

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Jones, Eric W., Jean M. Carlson, David A. Sivak, and William B. Ludington. "Stochastic microbiome assembly depends on context." Proceedings of the National Academy of Sciences 119, no. 7 (2022). http://dx.doi.org/10.1073/pnas.2115877119.

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Significance Individuals are constantly exposed to microbial organisms that may or may not colonize their gut microbiome, and newborn individuals assemble their microbiomes through a number of these acquisition events. Since microbiome composition has been shown to influence host physiology, a mechanistic understanding of community assembly has potentially therapeutic applications. In this paper we study microbiome acquisition in a highly controlled setting using germ-free fruit flies inoculated with specific bacterial species at known abundances. Our approach revealed that acquisition events

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Majumder, Rajib, Brodie Sutcliffe, Phillip W. Taylor, and Toni A. Chapman. "Next-Generation Sequencing reveals relationship between the larval microbiome and food substrate in the polyphagous Queensland fruit fly." Scientific Reports 9, no. 1 (2019). http://dx.doi.org/10.1038/s41598-019-50602-5.

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Abstract Insects typically host substantial microbial communities (the ‘microbiome’) that can serve as a vital source of nutrients and also acts as a modulator of immune function. While recent studies have shown that diet is an important influence on the gut microbiome, very little is known about the dynamics underpinning microbial acquisition from natural food sources. Here, we addressed this gap by comparing the microbiome of larvae of the polyphagous fruit fly Bactrocera tryoni (‘Queensland fruit fly’) that were collected from five different fruit types (sapodilla [from two different locali

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Wilson, Stephanie M. G., Jesse T. Peach, Hunter Fausset, et al. "Metabolic impact of polyphenol-rich aronia fruit juice mediated by inflammation status of gut microbiome donors in humanized mouse model." Frontiers in Nutrition 10 (September 1, 2023). http://dx.doi.org/10.3389/fnut.2023.1244692.

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BackgroundThe Aronia melanocarpa fruit is emerging as a health food owing to its high polyphenolic content and associated antioxidant activity. Antioxidant-rich foods, such as Aronia fruit, may counter inflammatory stimuli and positively modulate the gut microbiome. However, a comprehensive study characterizing the impact of Aronia fruit supplementation has not been completed. Therefore, we completed analyses measuring the metabolic, microbial, and inflammatory effects of a diet supplemented with Aronia fruit juice.MethodHumanized mice were generated by colonizing gnotobiotic mice with microbi

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Luo, Xue, Kai Sun, Hao-Ran Li, et al. "Depletion of protective microbiota promotes the incidence of fruit disease." ISME Journal, May 1, 2024. http://dx.doi.org/10.1093/ismejo/wrae071.

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Abstract Plant-associated microbiomes play important roles in plant health and productivity. However, despite fruits being directly linked to plant productivity, little is known about the microbiomes of fruits and their potential association with fruit health. Here, by integrating 16S rRNA gene, ITS high-throughput sequencing data and microbiological culturable approaches, we reported that roots and fruits (pods) of peanut, a typical plant that bears fruits underground, recruit different bacterial and fungal communities independently of cropping conditions, and that the incidence of pod diseas

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Yu, Yi, and Igor Iatsenko. "Drosophila symbionts in infection: when a friend becomes an enemy." Infection and Immunity, April 2, 2025. https://doi.org/10.1128/iai.00511-24.

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ABSTRACT The insect microbiome is comprised of extracellular microbial communities that colonize the host surfaces and endosymbionts that reside inside host cells and tissues. Both of these communities participate in essential aspects of host biology, including the immune response and interactions with pathogens. In recent years, our knowledge about the role of the insect microbiome in infection has increased tremendously. While many studies have highlighted the microbiome’s protective effect against various natural enemies of insects, unexpected discoveries have shown that some members of the

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