1
|
Marulanda-Moreno SM, Saldamando-Benjumea CI, Vivero Gomez R, Cadavid-Restrepo G, Moreno-Herrera CX. Comparative analysis of Spodoptera frugiperda (J. E. Smith) (Lepidoptera, Noctuidae) corn and rice strains microbiota revealed minor changes across life cycle and strain endosymbiont association. PeerJ 2024; 12:e17087. [PMID: 38623496 PMCID: PMC11017975 DOI: 10.7717/peerj.17087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2023] [Accepted: 02/20/2024] [Indexed: 04/17/2024] Open
Abstract
Background Spodoptera frugiperda (FAW) is a pest that poses a significant threat to corn production worldwide, causing millions of dollars in losses. The species has evolved into two strains (corn and rice) that differ in their genetics, reproductive isolation, and resistance to insecticides and Bacillus thuringiensis endotoxins. The microbiota plays an important role in insects' physiology, nutrient acquisition, and response to chemical and biological controls. Several studies have been carried out on FAW microbiota from larvae guts using laboratory or field samples and a couple of studies have analyzed the corn strain microbiota across its life cycle. This investigation reveals the first comparison between corn strain (CS) and rice strain (RS) of FAW during different developmental insect stages and, more importantly, endosymbiont detection in both strains, highlighting the importance of studying both FAW populations and samples from different stages. Methods The composition of microbiota during the life cycle of the FAW corn and rice strains was analyzed through high-throughput sequencing of the bacterial 16S rRNA gene using the MiSeq system. Additionally, culture-dependent techniques were used to isolate gut bacteria and the Transcribed Internal Spacer-ITS, 16S rRNA, and gyrB genes were examined to enhance bacterial identification. Results Richness, diversity, and bacterial composition changed significantly across the life cycle of FAW. Most diversity was observed in eggs and males. Differences in gut microbiota diversity between CS and RS were minor. However, Leuconostoc, A2, Klebsiella, Lachnoclostridium, Spiroplasma, and Mucispirilum were mainly associated with RS and Colidextribacter, Pelomonas, Weissella, and Arsenophonus to CS, suggesting that FAW strains differ in several genera according to the host plant. Firmicutes and Proteobacteria were the dominant phyla during FAW metamorphosis. Illeobacterium, Ralstonia, and Burkholderia exhibited similar abundancies in both strains. Enterococcus was identified as a conserved taxon across the entire FAW life cycle. Microbiota core communities mainly consisted of Enterococcus and Illeobacterium. A positive correlation was found between Spiroplasma with RS (sampled from eggs, larvae, pupae, and adults) and Arsenophonus (sampled from eggs, larvae, and adults) with CS. Enterococcus mundtii was predominant in all developmental stages. Previous studies have suggested its importance in FAW response to B. thuringensis. Our results are relevant for the characterization of FAW corn and rice strains microbiota to develop new strategies for their control. Detection of Arsenophonus in CS and Spiroplasma in RS are promising for the improvement of this pest management, as these bacteria induce male killing and larvae fitness reduction in other Lepidoptera species.
Collapse
Affiliation(s)
- Sandra María Marulanda-Moreno
- Grupo de Microbiodiversidad y Bioprospección-Microbiop, Departamento de Biociencias, Facultad de Ciencias, Universidad Nacional de Colombia, sede Medellín, Colombia
| | - Clara Inés Saldamando-Benjumea
- Grupo de Biotecnología Vegetal UNALMED-CIB. Línea en Ecología y Evolución de Insectos, Facultad de Ciencias, Universidad Nacional de Colombia, Medellín, Colombia
| | - Rafael Vivero Gomez
- Grupo de Microbiodiversidad y Bioprospección-Microbiop, Universidad Nacional de Colombia, sede Medellín, Colombia
| | - Gloria Cadavid-Restrepo
- Grupo de Microbiodiversidad y Bioprospección-Microbiop, Departamento de Biociencias, Facultad de Ciencias, Universidad Nacional de Colombia, sede Medellín, Colombia
| | - Claudia Ximena Moreno-Herrera
- Grupo de Microbiodiversidad y Bioprospección-Microbiop, Departamento de Biociencias, Facultad de Ciencias, Universidad Nacional de Colombia, sede Medellín, Colombia
| |
Collapse
|
2
|
Zhu W, Chang L, Shi S, Lu N, Du S, Li J, Jiang J, Wang B. Gut microbiota reflect adaptation of cave-dwelling tadpoles to resource scarcity. THE ISME JOURNAL 2024; 18:wrad009. [PMID: 38365235 PMCID: PMC10811740 DOI: 10.1093/ismejo/wrad009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Revised: 11/13/2023] [Accepted: 11/15/2023] [Indexed: 02/18/2024]
Abstract
Gut microbiota are significant to the host's nutrition and provide a flexible way for the host to adapt to extreme environments. However, whether gut microbiota help the host to colonize caves, a resource-limited environment, remains unknown. The nonobligate cave frog Oreolalax rhodostigmatus completes its metamorphosis within caves for 3-5 years before foraging outside. Their tadpoles are occasionally removed from the caves by floods and utilize outside resources, providing a contrast to the cave-dwelling population. For both cave and outside tadpoles, the development-related reduction in their growth rate and gut length during prometamorphosis coincided with a shift in their gut microbiota, which was characterized by decreased Lactobacillus and Cellulosilyticum and Proteocatella in the cave and outside individuals, respectively. The proportion of these three genera was significantly higher in the gut microbiota of cave-dwelling individuals compared with those outside. The cave-dwellers' gut microbiota harbored more abundant fibrolytic, glycolytic, and fermentative enzymes and yielded more short-chain fatty acids, potentially benefitting the host's nutrition. Experimentally depriving the animals of food resulted in gut atrophy for the individuals collected outside the cave, but not for those from inside the cave. Imitating food scarcity reproduced some major microbial features (e.g. abundant Proteocatella and fermentative genes) of the field-collected cave individuals, indicating an association between the cave-associated gut microbiota and resource scarcity. Overall, the gut microbiota may reflect the adaptation of O. rhodostigmatus tadpoles to resource-limited environments. This extends our understanding of the role of gut microbiota in the adaptation of animals to extreme environments.
Collapse
Affiliation(s)
- Wei Zhu
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Liming Chang
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Shengchao Shi
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Ningning Lu
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Simeng Du
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Jiatang Li
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Jianping Jiang
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| | - Bin Wang
- Chinese Academy of Sciences Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization & Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, Sichuan, China
| |
Collapse
|
3
|
Cambronero-Heinrichs JC, Battisti A, Biedermann PHW, Cavaletto G, Castro-Gutierrez V, Favaro L, Santoiemma G, Rassati D. Erwiniaceae bacteria play defensive and nutritional roles in two widespread ambrosia beetles. FEMS Microbiol Ecol 2023; 99:fiad144. [PMID: 37951293 PMCID: PMC10664977 DOI: 10.1093/femsec/fiad144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2023] [Revised: 10/29/2023] [Accepted: 11/08/2023] [Indexed: 11/13/2023] Open
Abstract
Ambrosia beetles are fungal-growing insects excavating galleries deep inside the wood. Their success as invaders increased scientific interest towards them. However, most studies on their microbiota targeted their fungal associates whereas the role of bacterial associates is understudied. To explore the role of abundant microbial associates, we isolated bacteria from active galleries of two widespread ambrosia beetles, Xylosandrus crassiusculus and X. germanus. These isolates were classified within the Erwiniaceae family and through a phylogenetic analysis including isolates from other insects we showed that they clustered with isolates obtained from ambrosia and bark beetles, including Erwinia typographi. The whole genome analysis of the isolate from active galleries of X. crassiusculus suggested that this bacterium plays both a nutritional role, by providing essential amino acids and enzymes for the hydrolysis of plant biomass, and a defensive role, by producing antibiotics. This defensive role was also tested in vitro against fungi, including mutualists, common associates, and parasites. The bacteria inhibited the growth of some of the common associates and parasites but did not affect mutualists. Our study supported the hypothesis of a mutualist role of Erwiniaceae bacteria in ambrosia beetles and highlighed the importance of bacteria in maintaining the symbiosis of their host with nutritional fungi.
Collapse
Affiliation(s)
- Juan Carlos Cambronero-Heinrichs
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| | - Andrea Battisti
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| | - Peter H W Biedermann
- Chair for Forest Entomology and Protection, University of Freiburg, Stegen-Wittental 79252, Germany
| | - Giacomo Cavaletto
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| | - Víctor Castro-Gutierrez
- Center for Research on Environmental Pollution (CICA), University of Costa Rica, Montes de Oca 11501, Costa Rica
| | - Lorenzo Favaro
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| | - Giacomo Santoiemma
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| | - Davide Rassati
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova, Legnaro (PD) 35020, Italy
| |
Collapse
|
4
|
Martiarena MJS, Deveau A, Montoya QV, Flórez LV, Rodrigues A. The Hyphosphere of Leaf-Cutting Ant Cultivars Is Enriched with Helper Bacteria. MICROBIAL ECOLOGY 2023; 86:1773-1788. [PMID: 36754866 DOI: 10.1007/s00248-023-02187-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Accepted: 01/29/2023] [Indexed: 06/18/2023]
Abstract
Bacteria can live in a variety of interkingdom communities playing key ecological roles. The microbiome of leaf-cutting attine ant colonies are a remarkable example of such communities, as they support ants' metabolic processes and the maintenance of ant-fungus gardens. Studies on this topic have explored the bacterial community of the whole fungus garden, without discerning bacterial groups associated with the nutrient storage structures (gongylidia) of ant fungal cultivars. Here we studied bacteria isolated from the surface of gongylidia in the cultivars of Atta sexdens and Acromyrmex coronatus, to assess whether the bacterial community influences the biology of the fungus. A total of 10 bacterial strains were isolated from gongylidia (Bacillus sp., Lysinibacillus sp., Niallia sp., Staphylococcus sp., Paenibacillus sp., Pantoea sp., Staphylococcus sp., and one Actinobacteria). Some bacterial isolates increased gongylidia production and fungal biomass while others had inhibitory effects. Eight bacterial strains were confirmed to form biofilm-like structures on the fungal cultivar hyphae. They also showed auxiliary metabolic functions useful for the development of the fungal garden such as phosphate solubilization, siderophore production, cellulose and chitin degradation, and antifungal activity against antagonists of the fungal cultivar. Bacteria-bacteria interaction assays revealed heterogeneous behaviors including synergism and competition, which might contribute to regulate the community structure inside the garden. Our results suggest that bacteria and the ant fungal cultivar interact directly, across a continuum of positive and negative interactions within the community. These complex relationships could ultimately contribute to the stability of the ant-fungus mutualism.
Collapse
Affiliation(s)
- Maria Jesus Sutta Martiarena
- Department of General and Applied Biology, São Paulo State University (UNESP), Avenida 24-A, 1515, Bela Vista, Rio Claro, SP, 13.506-900, Brazil
| | - Aurelie Deveau
- UMR IAM, Université de Lorraine, INRAE, 54280, Champenoux, France
| | - Quimi Vidaurre Montoya
- Department of General and Applied Biology, São Paulo State University (UNESP), Avenida 24-A, 1515, Bela Vista, Rio Claro, SP, 13.506-900, Brazil
| | - Laura V Flórez
- Department of Plant and Environmental Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Andre Rodrigues
- Department of General and Applied Biology, São Paulo State University (UNESP), Avenida 24-A, 1515, Bela Vista, Rio Claro, SP, 13.506-900, Brazil.
| |
Collapse
|
5
|
Liu YC, Chen TH, Huang YF, Chen CL, Nai YS. Investigation of the fall armyworm (Spodoptera frugiperda) gut microbiome and entomopathogenic fungus-induced pathobiome. J Invertebr Pathol 2023; 200:107976. [PMID: 37541570 DOI: 10.1016/j.jip.2023.107976] [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: 03/24/2023] [Revised: 06/20/2023] [Accepted: 07/03/2023] [Indexed: 08/06/2023]
Abstract
The gut microflora plays an important role in insect development and physiology. The gut bacterial microbiome of the fall armyworm (FAW), Spodoptera frugiperda, in both cornfield and laboratory-reared populations was investigated using a 16S metagenomic approach. The alpha- and beta-diversity of the cornfield FAW populations varied among sampling sites and were higher than those of the laboratory-reared FAW population, indicating that different diets and environments influence the gut bacterial composition. To better understand the interaction between the microbiome and entomopathogenic fungi (EPF), FAWs from organic and conventionally managed corn fields and from the laboratory-reared colony were inoculated with Beauveria bassiana NCHU-153 (Bb-NCHU-153). A longer median lethal time (LT50) was observed in the Bb-NCHU-153-infected cornfield FAW population than in the laboratory-reared FAWs. In terms of the microbiome, three Bb-NCHU-153-infected FAW groups showed different gut bacterial compositions compared to noninfected FAW. Further investigation of the cooccurrence network and linear discriminant analysis (LDA) of effect size (LEfSe) revealed that the enriched bacterial genera, such as Enterococcus, Serratia, Achromobacter, and Tsukamurella, in the gut might play the role of opportunistic pathogens after fungal infection; in contrast, some gut bacteria of Methylobacterium, Marinomonas, Paenochrobactrum, Pseudomonas, Acinetobacter, Delftia, Dietzia, Gordonia, Leucobacter, Paracoccus, and Stenotrophomonas might be probiotics against EPF infection. These results indicated that EPF infection can change the gut bacterial composition and lead to a pathobiome in the FAW and that some bacterial species might protect the FAW from EPF infection. These findings could be applied to the design of pathobiome-inducing biocontrol strategies.
Collapse
Affiliation(s)
- Yao-Chia Liu
- Department of Entomology, National Chung-Hsing University, Taichung 402, Taiwan
| | - Tzu-Han Chen
- Department of Entomology, National Chung-Hsing University, Taichung 402, Taiwan
| | - Yu-Feng Huang
- Department of Entomology, National Chung-Hsing University, Taichung 402, Taiwan; Department of Computer Science and Engineering, Yuan-Ze University, Tao-Yuan City 32003, Taiwan
| | - Chang-Lin Chen
- Department of Horticulture, National Chung-Hsing University, Taichung 402, Taiwan
| | - Yu-Shin Nai
- Department of Entomology, National Chung-Hsing University, Taichung 402, Taiwan.
| |
Collapse
|
6
|
Gao H, Jiang S, Wang Y, Hu M, Xue Y, Cao B, Dou H, Li R, Yi X, Jiang L, Zhang B, Li Y. Comparison of gut bacterial communities of Hyphantriacunea Drury (Lepidoptera, Arctiidae), based on 16S rRNA full-length sequencing. Biodivers Data J 2023; 11:e98143. [PMID: 38327372 PMCID: PMC10848398 DOI: 10.3897/bdj.11.e98143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 04/14/2023] [Indexed: 02/09/2024] Open
Abstract
There are a large number of microorganisms in the gut of insects, which form a symbiotic relationship with the host during the long-term co-evolution process and have a significant impact on the host's nutrition, physiology, development, immunity, stress tolerance and other aspects. However, the composition of the gut microbes of Hyphantriacunea remains unclear. In order to investigate the difference and diversity of intestinal microbiota of H.cunea larvae feeding on different host plants, we used PacBio sequencing technology for the first time to sequence the 16S rRNA full-length gene of the intestinal microbiota of H.cunea. The species classification, β diversity and function of intestinal microflora of the 5th instar larvae of four species of H.cunea feeding on apricot, plum, redbud and Chinese ash were analysed. The results showed that a total of nine phyla and 65 genera were identified by PacBio sequencing, amongst which Firmicutes was the dominant phylum and Enterococcus was the dominant genus, with an average relative abundance of 59.29% and 52.16%, respectively. PERMANOVA analysis and cluster heat map showed that the intestinal microbiomes of H.cunea larvae, fed on different hosts, were significantly different. LEfSe analysis confirmed the effect of host diet on intestinal community structure and PICRUSt2 analysis showed that most of the predictive functions were closely related to material transport and synthetic, metabolic and cellular processes. The results of this study laid a foundation for revealing the interaction between the intestinal microorganisms of H.cunea and its hosts and provided ideas for exploring new green prevention and control strategies of H.cunea.
Collapse
Affiliation(s)
- Hui Gao
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
- School of Life Sciences, Shandong University, Qingdao, ChinaSchool of Life Sciences, Shandong UniversityQingdaoChina
| | - Sai Jiang
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Yinan Wang
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Meng Hu
- Forestry Protection and Development Service Center of Jining City, Jining, ChinaForestry Protection and Development Service Center of Jining CityJiningChina
| | - Yuyan Xue
- Qufu Bureau of Natural Resources and Planning, Qufu, ChinaQufu Bureau of Natural Resources and PlanningQufuChina
| | - Bing Cao
- Animal Husbandry and Fisheries Development Centre of Tengzhou, Tengzhou, ChinaAnimal Husbandry and Fisheries Development Centre of TengzhouTengzhouChina
| | - Hailong Dou
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Ran Li
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Xianfeng Yi
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Lina Jiang
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| | - Bin Zhang
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia Autonomous Region, ChinaCollege of Life Sciences and Technology, Inner Mongolia Normal UniversityHohhot, Inner Mongolia Autonomous RegionChina
| | - Yujian Li
- School of Life Sciences, Qufu Normal University, Qufu, ChinaSchool of Life Sciences, Qufu Normal UniversityQufuChina
| |
Collapse
|
7
|
Han S, Zhou Y, Wang D, Qin Q, Song P, He Y. Effect of Different Host Plants on the Diversity of Gut Bacterial Communities of Spodoptera frugiperda (J. E. Smith, 1797). INSECTS 2023; 14:264. [PMID: 36975949 PMCID: PMC10053068 DOI: 10.3390/insects14030264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 02/23/2023] [Accepted: 03/02/2023] [Indexed: 06/18/2023]
Abstract
Intestinal symbiotic bacteria have formed an interdependent symbiotic relationship with many insect species after long-term coevolution, which plays a critical role in host growth and adaptation. Spodoptera frugiperda (J. E. Smith) is a worldwide significant migratory invasive pest. As a polyphagous pest, S. frugiperda can harm more than 350 plants and poses a severe threat to food security and agricultural production. In this study, 16S rRNA high-throughput sequencing technology was used to analyze the diversity and structure of the gut bacteria of this pest feeding on six diets (maize, wheat, rice, honeysuckle flowers, honeysuckle leaves, and Chinese yam). The results showed that the S. frugiperda fed on rice had the highest bacterial richness and diversity, whereas the larvae fed on honeysuckle flowers had the lowest abundance and diversity of gut bacterial communities. Firmicutes, Actinobacteriota, and Proteobacteria were the most dominant bacterial phyla. PICRUSt2 analysis indicated that most of the functional prediction categories were concentrated in metabolic bacteria. Our results confirmed that the gut bacterial diversity and community composition of S. frugiperda were affected significantly by host diets. This study provided a theoretical basis for clarifying the host adaptation mechanism of S. frugiperda, which also provided a new direction to improve polyphagous pest management strategies.
Collapse
|
8
|
Wang X, Wang H, Su X, Zhang J, Bai J, Zeng J, Li H. Dynamic changes of gut bacterial communities present in larvae of Anoplophora glabripennies collected at different developmental stages. ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY 2023; 112:e21978. [PMID: 36377756 DOI: 10.1002/arch.21978] [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: 08/13/2022] [Revised: 09/25/2022] [Accepted: 10/03/2022] [Indexed: 06/16/2023]
Abstract
The Asian long-horned beetle, Anoplophora glabripennies (Motschulsky), is a destructive wood-boring pest that is capable of killing healthy trees. Gut bacteria in the larvae of the wood-boring pest is essential for the fitness of hosts. However, little is known about the structure of the intestinal microbiome of A. glabripennies during larval development. Here, we used Illumina MiSeq high-throughput sequencing technology to analyze the larval intestinal bacterial communities of A. glabripennies at the stages of newly hatched larvae, 1st instar larvae and 4th instar larvae. Significant differences were found in larval gut microbial community structure at different larvae developmental stages. Different dominant genus was detected during larval development. Acinetobacter were dominant in the newly hatched larvae, Enterobacter and Raoultella in the 1st instar larvae, and Enterococcus and Gibbsiella in the 4th instar larvae. The microbial richness in the newly hatched larvae was higher than those in the 1st and 4th instar larvae. Many important functions of the intestinal microbiome were predicted, for example, fermentation and chemoheterotrophy functions that may play an important role in insect growth and development was detected in the bacteria at all tested stages. However, some specific functions are found to be associated with different development stages. Our study provides a theoretical basis for investigating the function of the intestinal symbiosis bacteria of A. glabripennies.
Collapse
Affiliation(s)
- XueFei Wang
- College of Forestry, Hebei Agricultural University, Hebei, China
| | - HuaLing Wang
- College of Forestry, Hebei Agricultural University, Hebei, China
- Hebei Urban Forest Health Technology Innovation Center, Hebei, China
| | - XiaoYu Su
- College of Forestry, Hebei Agricultural University, Hebei, China
- Hebei Urban Forest Health Technology Innovation Center, Hebei, China
| | - Jie Zhang
- College of Forestry, Hebei Agricultural University, Hebei, China
| | - JiaWei Bai
- College of Forestry, Hebei Agricultural University, Hebei, China
| | - JianYong Zeng
- College of Forestry, Hebei Agricultural University, Hebei, China
- Key Laboratory of Forest Germplasm Resources and Protection of Hebei Province, Hebei, China
| | - HuiPing Li
- College of Forestry, Hebei Agricultural University, Hebei, China
- Hebei Urban Forest Health Technology Innovation Center, Hebei, China
| |
Collapse
|
9
|
Zhan M, Wang A, Yao Y, Zhou Y, Zhang S, Fu X, Zhou J, Pei E, Wang L. An amateur gut microbial configuration formed in giant panda for striving to digest cellulose in bamboo: Systematic evidence from intestinal digestive enzymes, functional genes and microbial structures. Front Microbiol 2022; 13:926515. [PMID: 35958139 PMCID: PMC9363027 DOI: 10.3389/fmicb.2022.926515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Accepted: 07/04/2022] [Indexed: 11/14/2022] Open
Abstract
The giant panda has been considered to maximize nutritional intake including protein and soluble carbohydrates in bamboo, but it has spent almost entire life with the high-cellulose diet. Whether giant panda is still helpless about digesting bamboo cellulose or not is always contentious among many researchers around the world. The work has systematically clarified this issue from the perspectives of digestive enzymes, functional genes, and microbial structures in giant panda gut. The intestinal cellulase activities of panda increase with bamboo consumption, performing that the endoglucanase activity of adults reaches 10-fold that of pandas first consuming bamboo. More abundance and types of microbial endoglucanase genes occur in bamboo-diet giant panda gut, and the corresponding GH5 gene cluster is still efficiently transcribed. Gut microbes possessing cellulose-degrading genes, belong to the phylum Firmicutes and some Bacteroidetes, but their structural and functional configurations are insufficient to completely degrade cellulose. Therefore, giant panda is striving to digest cellulose in bamboo, but this adaptation is incomplete. This is probably related to the short straight carnivore-like gut structure of the giant panda, preventing the colonization of some efficient functional but anaerobic-preferred flora.
Collapse
Affiliation(s)
- Mingye Zhan
- College of Environmental Science and Engineering, Institute of Pollution Control and Ecological Safety, Tongji University, Shanghai, China
| | | | | | - Yingmin Zhou
- China Conservation and Research Center for the Giant Panda, Dujiangyan, China
| | | | - Xiaohua Fu
- College of Environmental Science and Engineering, Institute of Pollution Control and Ecological Safety, Tongji University, Shanghai, China
| | | | | | - Lei Wang
- College of Environmental Science and Engineering, Institute of Pollution Control and Ecological Safety, Tongji University, Shanghai, China
- *Correspondence: Lei Wang,
| |
Collapse
|
10
|
Goes AC, Kooij PW, Culot L, Bueno OC, Rodrigues A. Distinct and enhanced hygienic responses of a leaf-cutting ant toward repeated fungi exposures. Ecol Evol 2022; 12:e9112. [PMID: 35866016 PMCID: PMC9288931 DOI: 10.1002/ece3.9112] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 06/06/2022] [Accepted: 06/23/2022] [Indexed: 11/10/2022] Open
Abstract
Leaf-cutting ants and their fungal crops are a textbook example of a long-term obligatory mutualism. Many microbes continuously enter their nest containing the fungal cultivars, destabilizing the symbiosis and, in some cases, outcompeting the mutualistic partners. Preferably, the ant workers should distinguish between different microorganisms to respond according to their threat level and recurrence in the colony. To address these assumptions, we investigated how workers of Atta sexdens sanitize their fungal crop toward five different fungi commonly isolated from the fungus gardens: Escovopsis sp., Fusarium oxysporum, Metarhizium anisopliae, Trichoderma spirale, and Syncephalastrum sp. Also, to investigate the plasticity of these responses toward recurrences of these fungi, we exposed the colonies with each fungus three times fourteen days apart. As expected, intensities in sanitization differed according to the fungal species. Ants significantly groom their fungal crop more toward F. oxysporum, M. anisopliae, and Syncephalastrum sp. than toward Escovopsis sp. and T. spirale. Weeding, self-, and allogrooming were observed in less frequency than fungus grooming in all cases. Moreover, we detected a significant increase in the overall responses after repeated exposures for each fungus, except for Escovopsis sp. Our results indicate that A. sexdens workers are able to distinguish between different fungi and apply distinct responses to remove these from the fungus gardens. Our findings also suggest that successive exposures to the same antagonist increase hygiene, indicating plasticity of ant colonies' defenses to previously encountered pathogens.
Collapse
Affiliation(s)
- Aryel C. Goes
- Department of General and Applied BiologySão Paulo State University (UNESP)Rio ClaroBrazil
| | - Pepijn W. Kooij
- Department of General and Applied BiologySão Paulo State University (UNESP)Rio ClaroBrazil
| | - Laurence Culot
- Department of BiodiversitySão Paulo State University (UNESP)Rio ClaroBrazil
| | - Odair C. Bueno
- Department of General and Applied BiologySão Paulo State University (UNESP)Rio ClaroBrazil
| | - Andre Rodrigues
- Department of General and Applied BiologySão Paulo State University (UNESP)Rio ClaroBrazil
| |
Collapse
|
11
|
Travanty NV, Vargo EL, Apperson CS, Ponnusamy L. Colonization by the Red Imported Fire Ant, Solenopsis invicta, Modifies Soil Bacterial Communities. MICROBIAL ECOLOGY 2022; 84:240-256. [PMID: 34370055 DOI: 10.1007/s00248-021-01826-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Accepted: 07/19/2021] [Indexed: 06/13/2023]
Abstract
The long-standing association between insects and microorganisms has been especially crucial to the evolutionary and ecological success of social insect groups. Notably, research on the interaction of the two social forms (monogyne and polygyne) of the red imported fire ant (RIFA), Solenopsis invicta Buren, with microbes in its soil habitat is presently limited. In this study, we characterized bacterial microbiomes associated with RIFA nest soils and native (RIFA-negative) soils to better understand the effects of colonization of RIFA on soil microbial communities. Bacterial community fingerprints of 16S rRNA amplicons using denaturing gradient gel electrophoresis revealed significant differences in the structure of the bacterial communities between RIFA-positive and RIFA-negative soils at 0 and 10 cm depths. Illumina sequencing of 16S rRNA amplicons provided fine-scale analysis to test for effects of RIFA colonization, RIFA social form, and soil depth on the composition of the bacterial microbiomes of the soil and RIFA workers. Our results showed the bacterial community structure of RIFA-colonized soils to be significantly different from native soil communities and to evidence elevated abundances of several taxa, including Actinobacteria. Colony social form was not found to be a significant factor in nest or RIFA worker microbiome compositions. RIFA workers and nest soils were determined to have markedly different bacterial communities, with RIFA worker microbiomes being characterized by high abundances of a Bartonella-like endosymbiont and Entomoplasmataceae. Cloning and sequencing of the 16S rRNA gene revealed the Bartonella sp. to be a novel bacterium.
Collapse
Affiliation(s)
- Nicholas V Travanty
- Department of Entomology and Plant Pathology, North Carolina State University, NC, 27695, Raleigh, USA
| | - Edward L Vargo
- Department of Entomology, Texas A&M University, College Station, TX, 77843, USA
| | - Charles S Apperson
- Department of Entomology and Plant Pathology, North Carolina State University, NC, 27695, Raleigh, USA
- Comparative Medicine Institute, North Carolina State University, Raleigh, NC, 27695, USA
| | - Loganathan Ponnusamy
- Department of Entomology and Plant Pathology, North Carolina State University, NC, 27695, Raleigh, USA.
- Comparative Medicine Institute, North Carolina State University, Raleigh, NC, 27695, USA.
| |
Collapse
|
12
|
Barcoto MO, Rodrigues A. Lessons From Insect Fungiculture: From Microbial Ecology to Plastics Degradation. Front Microbiol 2022; 13:812143. [PMID: 35685924 PMCID: PMC9171207 DOI: 10.3389/fmicb.2022.812143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Accepted: 03/15/2022] [Indexed: 11/13/2022] Open
Abstract
Anthropogenic activities have extensively transformed the biosphere by extracting and disposing of resources, crossing boundaries of planetary threat while causing a global crisis of waste overload. Despite fundamental differences regarding structure and recalcitrance, lignocellulose and plastic polymers share physical-chemical properties to some extent, that include carbon skeletons with similar chemical bonds, hydrophobic properties, amorphous and crystalline regions. Microbial strategies for metabolizing recalcitrant polymers have been selected and optimized through evolution, thus understanding natural processes for lignocellulose modification could aid the challenge of dealing with the recalcitrant human-made polymers spread worldwide. We propose to look for inspiration in the charismatic fungal-growing insects to understand multipartite degradation of plant polymers. Independently evolved in diverse insect lineages, fungiculture embraces passive or active fungal cultivation for food, protection, and structural purposes. We consider there is much to learn from these symbioses, in special from the community-level degradation of recalcitrant biomass and defensive metabolites. Microbial plant-degrading systems at the core of insect fungicultures could be promising candidates for degrading synthetic plastics. Here, we first compare the degradation of lignocellulose and plastic polymers, with emphasis in the overlapping microbial players and enzymatic activities between these processes. Second, we review the literature on diverse insect fungiculture systems, focusing on features that, while supporting insects' ecology and evolution, could also be applied in biotechnological processes. Third, taking lessons from these microbial communities, we suggest multidisciplinary strategies to identify microbial degraders, degrading enzymes and pathways, as well as microbial interactions and interdependencies. Spanning from multiomics to spectroscopy, microscopy, stable isotopes probing, enrichment microcosmos, and synthetic communities, these strategies would allow for a systemic understanding of the fungiculture ecology, driving to application possibilities. Detailing how the metabolic landscape is entangled to achieve ecological success could inspire sustainable efforts for mitigating the current environmental crisis.
Collapse
Affiliation(s)
- Mariana O. Barcoto
- Center for the Study of Social Insects, São Paulo State University (UNESP), Rio Claro, Brazil
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Andre Rodrigues
- Center for the Study of Social Insects, São Paulo State University (UNESP), Rio Claro, Brazil
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| |
Collapse
|
13
|
Zhao L, Wang WQ, Xu SQ, Guan DL. The Comparison of Gut Bacteria Communities and the Functions Among the Sympatric Grasshopper Species From the Loess Plateau. Front Microbiol 2022; 13:806927. [PMID: 35479627 PMCID: PMC9037097 DOI: 10.3389/fmicb.2022.806927] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2021] [Accepted: 02/22/2022] [Indexed: 11/13/2022] Open
Abstract
Gut bacteria exert effects on the health and fitness of their insect hosts. Grasshoppers are an important part of the grassland ecosystem and provide important ecosystem services. As the most valuable feature in grassland ecosystem, the compositions and potential influences of gut bacterial in herbivorous grasshoppers in the same ecological environment are essential but undetermined. To facilitate such studies, we collected nine species of grasshoppers (n = 110) from a rebuild grassland on the Loess Plateau in northern Shaanxi, China, which is a representative area of ecosystem restoration model. We characterized the composition and function of the gut bacteria. We found that 326 OTUs were exhibited in all grasshoppers in which Enterobacter, Pantoea, Bacillus, and Spiroplsma are dominant. Among them, 18 OTUs were shared across all nine species of grasshoppers. The predicted function showed that the majority function of those OTUs were involved in survival dependent processes including membrane transport, carbohydrate metabolism, amino acid metabolism, and DNA replication and repair. The composition of gut bacteria is specific to each grasshopper species, and the bacteria community is most various in Trilophidia annulata. These results highlight the gut bacterial community diversity in different grasshopper species. Our findings are necessary for better understanding the relationships between this important herbivorous insect and their microbiomes and have the potential contribution of evaluating the revegetation and ecosystem management in this area.
Collapse
Affiliation(s)
- Lu Zhao
- College of Life Science, Shaanxi Normal University, Xi'an, China
| | - Wen-Qiang Wang
- College of Life Sciences, Yan'an University, Yan'an, China
| | - Sheng-Quan Xu
- College of Life Science, Shaanxi Normal University, Xi'an, China
| | - De-Long Guan
- College of Life Science, Shaanxi Normal University, Xi'an, China
| |
Collapse
|
14
|
Lewin GR, Davis NM, McDonald BR, Book AJ, Chevrette MG, Suh S, Boll A, Currie CR. Long-Term Cellulose Enrichment Selects for Highly Cellulolytic Consortia and Competition for Public Goods. mSystems 2022; 7:e0151921. [PMID: 35258341 PMCID: PMC9040578 DOI: 10.1128/msystems.01519-21] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2022] [Accepted: 02/10/2022] [Indexed: 11/23/2022] Open
Abstract
The complexity of microbial communities hinders our understanding of how microbial diversity and microbe-microbe interactions impact community functions. Here, using six independent communities originating from the refuse dumps of leaf-cutter ants and enriched using the plant polymer cellulose as the sole source of carbon, we examine how changes in bacterial diversity and interactions impact plant biomass decomposition. Over up to 60 serial transfers (∼8 months) using Whatman cellulose filter paper, cellulolytic ability increased and then stabilized in four enrichment lines and was variable in two lines. Bacterial community characterization using 16S rRNA gene amplicon sequencing showed community succession differed between the highly cellulolytic enrichment lines and those that had slower and more variable cellulose degradation rates. Metagenomic and metatranscriptomic analyses revealed that Cellvibrio and/or Cellulomonas dominated each enrichment line and produced the majority of cellulase enzymes, while diverse taxa were retained within these communities over the duration of transfers. Interestingly, the less cellulolytic communities had a higher diversity of organisms competing for the cellulose breakdown product cellobiose, suggesting that cheating slowed cellulose degradation. In addition, we found competitive exclusion as an important factor shaping all of the communities, with a negative correlation of Cellvibrio and Cellulomonas abundance within individual enrichment lines and the expression of genes associated with the production of secondary metabolites, toxins, and other antagonistic compounds. Our results provide insights into how microbial diversity and competition affect the stability and function of cellulose-degrading communities. IMPORTANCE Microbial communities are a key driver of the carbon cycle through the breakdown of complex polysaccharides in diverse environments including soil, marine systems, and the mammalian gut. However, due to the complexity of these communities, the species-species interactions that impact community structure and ultimately shape the rate of decomposition are difficult to define. Here, we performed serial enrichment on cellulose using communities inoculated from leaf-cutter ant refuse dumps, a cellulose-rich environment. By concurrently tracking cellulolytic ability and community composition and through metagenomic and metatranscriptomic sequencing, we analyzed the ecological dynamics of the enrichment lines. Our data suggest that antagonism is prevalent in these communities and that competition for soluble sugars may slow degradation and lead to community instability. Together, these results help reveal the relationships between competition and polysaccharide decomposition, with implications in diverse areas ranging from microbial community ecology to cellulosic biofuels production.
Collapse
Affiliation(s)
- Gina R. Lewin
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Nicole M. Davis
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Bradon R. McDonald
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Adam J. Book
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Marc G. Chevrette
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Wisconsin Institute for Discovery and Department of Plant Pathology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Steven Suh
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Ardina Boll
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| | - Cameron R. Currie
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin—Madison, Madison, Wisconsin, USA
- Department of Bacteriology, University of Wisconsin—Madison, Madison, Wisconsin, USA
| |
Collapse
|
15
|
Conlon BH, O'Tuama D, Michelsen A, Crumière AJJ, Shik JZ. A fungal symbiont converts provisioned cellulose into edible yield for its leafcutter ant farmers. Biol Lett 2022; 18:20220022. [PMID: 35440234 PMCID: PMC9019514 DOI: 10.1098/rsbl.2022.0022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
While ants are dominant consumers in terrestrial habitats, only the leafcutters practice herbivory. Leafcutters do this by provisioning a fungal cultivar (Leucoagaricus gongylophorus) with freshly cut plant fragments and harnessing its metabolic machinery to convert plant mulch into edible fungal tissue (hyphae and swollen hyphal cells called gongylidia). The cultivar is known to degrade cellulose, but whether it assimilates this ubiquitous but recalcitrant molecule into its nutritional reward structures is unknown. We use in vitro experiments with isotopically labelled cellulose to show that fungal cultures from an Atta colombica leafcutter colony convert cellulose-derived carbon into gongylidia, even when potential bacterial symbionts are excluded. A laboratory feeding experiment showed that cellulose assimilation also occurs in vivo in A. colombica colonies. Analyses of publicly available transcriptomic data further identified a complete, constitutively expressed, cellulose-degradation pathway in the fungal cultivar. Confirming leafcutters use cellulose as a food source sheds light on the eco-evolutionary success of these important herbivores.
Collapse
Affiliation(s)
- Benjamin H Conlon
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark
| | - David O'Tuama
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark
| | - Anders Michelsen
- Section for Terrestrial Ecology, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Antonin J J Crumière
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark
| | - Jonathan Z Shik
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark.,Smithsonian Tropical Research Institute, Apartado Postal 0843-03092, Balboa, Ancon, Panama
| |
Collapse
|
16
|
Bao W, He Y, Liu W. Diversity Analysis of Bacterial and Function Prediction in Hurunge From Mongolia. Front Nutr 2022; 9:835123. [PMID: 35399660 PMCID: PMC8990233 DOI: 10.3389/fnut.2022.835123] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Accepted: 01/19/2022] [Indexed: 11/13/2022] Open
Abstract
With the continuous infiltration of industrialization and modern lifestyle into pastoral areas, the types and processing capacity of Hurunge are decreasing, and the beneficial microbial resources contained in it are gradually disappearing. The preservation and processing of Hurunge are very important for herdsmen to successfully produce high-quality koumiss in the second year. Therefore, in this study, 12 precious Hurunge samples collected from Bulgan Province, Ovorkhangay Province, Arkhangay Province, and Tov Province of Mongolia were sequenced based on the V3-V4 region of the 16S rRNA gene, and the bacterial diversity and function were predicted and analyzed. There were significant differences in the species and abundance of bacteria in Hurunge from different regions and different production methods (p < 0.05). Compared with the traditional fermentation methods, the OTU level of Hurunge fermented in the capsule was low, the Acetobacter content was high and the bacterial diversity was low. Firmicutes and Lactobacillus were the dominant phylum and genus of 12 samples, respectively. The sample QHA contained Komagataeibacter with the potential ability to produce bacterial nanocellulose, and the abundance of Lactococcus in the Tov Province (Z) was significantly higher than that in the other three regions. Functional prediction analysis showed that genes related to the metabolism of bacterial growth and reproduction, especially carbohydrate and amino acid metabolism, played a dominant role in microorganisms. In summary, it is of great significance to further explore the bacterial diversity of Hurunge for the future development and research of beneficial microbial resources, promotion, and protection of the traditional ethnic dairy products.
Collapse
Affiliation(s)
- Wuyundalai Bao
- College of Food Science and Engineering, Inner Mongolia Agricultural University, Hohhot, China
| | | | | |
Collapse
|
17
|
Klimenko ES, Igumnov IA, Markova DP, Belkova NL, Suturina LV. Does Salivary Microbiome Reflect The Functional Activity Profile Of Oral Microbiota? RUSSIAN OPEN MEDICAL JOURNAL 2022. [DOI: 10.15275/rusomj.2022.0120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
Human oral cavity is a diverse habitat, consisting of many locations with its microbiotas. It was proven that bacteria detected in saliva could be the indicators of disease and be useful for diagnosis, monitoring, and overall assessment of the patient health. As pilot research of microbial communities associated with polycystic ovary syndrome (PCOS), biomaterials were collected from two patients (saliva, the contents of gingival pockets) for sequencing the amplicon libraries V4-V6 of variable regions of the 16S rRNA gene. Our study aimed at comparing the taxonomic and functional profiles of different locations in the oral cavity. Material and Methods — DNA samples were sequenced using Illumina MiSeq; the qiime2-2020.2 and PICRUSt2 v2.4.1 software packages were used to process the sequencing results of the amplicon libraries. Results — We demonstrated that the salivary microbiome had a greater taxonomic diversity, compared with the microbiome of the periodontal pockets. Regarding the ratios of different taxonomic group abundances, the species ratio in the saliva community significantly differed from the ratio in periodontal pockets. The microbiota of the oral cavity was classified as a producing community, since many different biosynthetic pathways were predicted. Similar functional features were identified for microbial communities in other locations. Conclusions — Different locations in the biotope of the oral cavity have varying species richness of their communities and specific taxonomic composition. However, the microbiotas of different microniches perform similar metabolic functions. This finding allows considering the analysis of saliva microbiota sufficiently representative tool for characterization of the entire oral microbiome.
Collapse
Affiliation(s)
- Elizaveta S. Klimenko
- Scientific Center for Family Health and Human Reproduction Problems, Irkutsk, Russia
| | - Ilya A. Igumnov
- Scientific Center for Family Health and Human Reproduction Problems, Irkutsk, Russia
| | - Daria P. Markova
- Scientific Center for Family Health and Human Reproduction Problems, Irkutsk, Russia
| | - Natalia L. Belkova
- Scientific Center for Family Health and Human Reproduction Problems, Irkutsk, Russia
| | - Larisa V. Suturina
- Scientific Center for Family Health and Human Reproduction Problems, Irkutsk, Russia
| |
Collapse
|
18
|
Zani RDOA, Ferro M, Bacci M. Three phylogenetically distinct and culturable diazotrophs are perennial symbionts of leaf-cutting ants. Ecol Evol 2021; 11:17686-17699. [PMID: 35003632 PMCID: PMC8717316 DOI: 10.1002/ece3.8213] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 09/06/2021] [Accepted: 09/21/2021] [Indexed: 02/04/2023] Open
Abstract
The obligate mutualistic basidiomycete fungus, Leucocoprinus gongylophorus, mediates nutrition of leaf-cutting ants with carbons from vegetal matter. In addition, diazotrophic Enterobacteriales in the fungus garden and intestinal Rhizobiales supposedly mediate assimilation of atmospheric nitrogen, and Entomoplasmatales in the genus Mesoplasma, as well as other yet unidentified strains, supposedly mediate ant assimilation of other compounds from vegetal matter, such as citrate, fructose, and amino acids. Together, these nutritional partners would support the production of high yields of leafcutter biomass. In the present investigation, we propose that three phylogenetically distinct and culturable diazotrophs in the genera Ralstonia, Methylobacterium, and Pseudomonas integrate this symbiotic nutrition network, facilitating ant nutrition on nitrogen. Strains in these genera were often isolated and directly sequenced in 16S rRNA libraries from the ant abdomen, together with the nondiazotrophs Acinetobacter and Brachybacterium. These five isolates were underrepresented in libraries, suggesting that none of them is dominant in vivo. Libraries have been dominated by four uncultured Rhizobiales strains in the genera Liberibacter, Terasakiella, and Bartonella and, only in Acromyrmex ants, by the Entomoplasmatales in the genus Mesoplasma. Acromyrmex also presented small amounts of two other uncultured Entomoplasmatales strains, Entomoplasma and Spiroplasma. The absence of Entomoplasmatales in Atta workers implicates that the association with these bacteria is not mandatory for ant biomass production. Most of the strains that we detected in South American ants were genetically similar with strains previously described in association with leafcutters from Central and North America, indicating wide geographic dispersion, and suggesting fixed ecological services.
Collapse
Affiliation(s)
| | - Milene Ferro
- Centro de Estudos de Insetos Sociais (CEIS)Universidade Estadual Paulista (UNESP)Rio Claro ‐ SPBrazil
| | - Maurício Bacci
- Centro de Estudos de Insetos Sociais (CEIS)Universidade Estadual Paulista (UNESP)Rio Claro ‐ SPBrazil
- Departamento de Biologia Geral e AplicadaUniversidade Estadual Paulista (UNESP)Rio Claro ‐ SPBrazil
| |
Collapse
|
19
|
da Silva LCD, Ferreira FIP, Dezoti LA, Nascimento CT, Orikasa C, Takita MA, de Medeiros AH. Diatraea saccharalis harbors microorganisms that can affect growth of sugarcane stalk-dwelling fungi. Braz J Microbiol 2021; 53:255-265. [PMID: 34735708 DOI: 10.1007/s42770-021-00647-4] [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: 05/12/2021] [Accepted: 10/25/2021] [Indexed: 11/26/2022] Open
Abstract
Diatraea saccharalis (Fabricius, 1794) (Lepidoptera: Crambidae), the sugarcane borer, spends most of its life cycle inside the galleries it burrows into sugarcane stalk, where two rot-causing fungi Colletotrichum falcatum (Went, 1893) and Fusarium verticillioides (Nirenberg, 1976) are commonly found. Results have shown that microbiota harbored by D. saccharalis inhibits the growth of F. verticillioides and C. falcatum. D. saccharalis larvae were collected from chemical-free field plants, and yeast and bacteria from third and fourth-instar D. saccharalis regurgitate were isolated onto appropriate media. The percentage of F. verticillioides and C. falcatum mycelial growth inhibition was recorded. Out of 32 yeast isolates, 9 exerted 30 to 40% growth inhibition of C. falcatum or F. verticillioides. When 24 bacterial isolates were confronted with rot-causing fungi, six inhibited C. falcatum growth by 30 to 60%, and 24 isolates inhibited 30 to 60% of F. verticillioides growth. Bacteria and yeast isolates were identified through DNA sequencing of part of 16S rDNA and part of ITS1-5.8S-ITS2, respectively, revealing an abundance of isolates with sequence similarity to Klebsiella and Bacillus and Meyerozyma, which have been used as biological control agents and their ability to promote plant growth has been demonstrated. We have shown that microorganisms from borer regurgitate inhibit phytopathogen growth in vitro. Still, further investigation of the possible functions of D. saccharalis-associated microorganisms may help understand their ecological role in plant-insect-phytopathogen interaction.
Collapse
Affiliation(s)
| | - Francisco Inácio Paiva Ferreira
- Laboratory of Molecular Biology, Center of Citriculture "Sylvio Moreira", Rod. Anhanguera km 158, Cordeirópolis, SP, 13490-970, Brazil
| | - Lais Augusto Dezoti
- Laboratory of Molecular Biology, Center of Citriculture "Sylvio Moreira", Rod. Anhanguera km 158, Cordeirópolis, SP, 13490-970, Brazil
| | - Caroline Thamara Nascimento
- Laboratory of Plant-Insect Interactions, Federal University of Sao Carlos-Araras, Rodovia Anhanguera km 174, Araras, SP, 13600-970, Brazil
| | - Caroline Orikasa
- Laboratory of Plant-Insect Interactions, Federal University of Sao Carlos-Araras, Rodovia Anhanguera km 174, Araras, SP, 13600-970, Brazil
| | - Marco Aurélio Takita
- Laboratory of Molecular Biology, Center of Citriculture "Sylvio Moreira", Rod. Anhanguera km 158, Cordeirópolis, SP, 13490-970, Brazil
| | - Ane Hackbart de Medeiros
- Laboratory of Plant-Insect Interactions, Federal University of Sao Carlos-Araras, Rodovia Anhanguera km 174, Araras, SP, 13600-970, Brazil.
| |
Collapse
|
20
|
Dar MA, Dhole NP, Xie R, Pawar KD, Ullah K, Rahi P, Pandit RS, Sun J. Valorization Potential of a Novel Bacterial Strain, Bacillus altitudinis RSP75, towards Lignocellulose Bioconversion: An Assessment of Symbiotic Bacteria from the Stored Grain Pest, Tribolium castaneum. Microorganisms 2021; 9:microorganisms9091952. [PMID: 34576846 PMCID: PMC8468446 DOI: 10.3390/microorganisms9091952] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2021] [Revised: 09/09/2021] [Accepted: 09/09/2021] [Indexed: 12/26/2022] Open
Abstract
Bioconversion of lignocellulose into renewable energy and commodity products faces a major obstacle of inefficient saccharification due to its recalcitrant structure. In nature, lignocellulose is efficiently degraded by some insects, including termites and beetles, potentially due to the contribution from symbiotic gut bacteria. To this end, the presented investigation reports the isolation and characterization of cellulolytic bacteria from the gut system of red flour beetle, Tribolium castaneum. Out of the 15 isolated bacteria, strain RSP75 showed the highest cellulolytic activities by forming a clearance zone of 28 mm in diameter with a hydrolytic capacity of ~4.7. The MALDI-TOF biotyping and 16S rRNA gene sequencing revealed that the strain RSP75 belongs to Bacillus altitudinis. Among the tested enzymes, B. altitudinis RSP75 showed maximum activity of 63.2 IU/mL extract for xylanase followed by β-glucosidase (47.1 ± 3 IU/mL extract) which were manifold higher than previously reported activities. The highest substrate degradation was achieved with wheat husk and corn cob powder which accounted for 69.2% and 54.5%, respectively. The scanning electron microscopy showed adhesion of the bacterial cells with the substrate which was further substantiated by FTIR analysis that depicted the absence of the characteristic cellulose bands at wave numbers 1247, 1375, and 1735 cm-1 due to hydrolysis by the bacterium. Furthermore, B. altitudinis RSP75 showed co-culturing competence with Saccharomyces cerevisiae for bioethanol production from lignocellulose as revealed by GC-MS analysis. The overall observations signify the gut of T. castaneum as a unique and impressive reservoir to prospect for lignocellulose-degrading bacteria that can have many biotechnological applications, including biofuels and biorefinery.
Collapse
Affiliation(s)
- Mudasir A. Dar
- Biofuels Institute, School of the Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China or (M.A.D.); (R.X.)
- Department of Zoology, Savitribai Phule Pune University, Ganeshkhind, Pune 411007, India;
| | - Neeraja P. Dhole
- Department of Zoology, Savitribai Phule Pune University, Ganeshkhind, Pune 411007, India;
| | - Rongrong Xie
- Biofuels Institute, School of the Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China or (M.A.D.); (R.X.)
| | - Kiran D. Pawar
- School of Nanoscience and Biotechnology, Shivaji University, Vidyanagar, Kolhapur 416004, India;
| | - Kalim Ullah
- School of Medicine, Jiangsu University, Zhenjiang 212013, China;
| | - Praveen Rahi
- National Centre for Microbial Research, Trinity Complex, Pashan, Pune 411021, India;
| | - Radhakrishna S. Pandit
- Department of Zoology, Savitribai Phule Pune University, Ganeshkhind, Pune 411007, India;
- Correspondence: (R.S.P.); (J.S.)
| | - Jianzhong Sun
- Biofuels Institute, School of the Environment and Safety Engineering, Jiangsu University, Zhenjiang 212013, China or (M.A.D.); (R.X.)
- Correspondence: (R.S.P.); (J.S.)
| |
Collapse
|
21
|
Caraballo-Rodríguez AM, Puckett SP, Kyle KE, Petras D, da Silva R, Nothias LF, Ernst M, van der Hooft JJJ, Tripathi A, Wang M, Balunas MJ, Klassen JL, Dorrestein PC. Chemical Gradients of Plant Substrates in an Atta texana Fungus Garden. mSystems 2021; 6:e0060121. [PMID: 34342533 PMCID: PMC8409729 DOI: 10.1128/msystems.00601-21] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2021] [Accepted: 07/02/2021] [Indexed: 11/21/2022] Open
Abstract
Many ant species grow fungus gardens that predigest food as an essential step of the ants' nutrient uptake. These symbiotic fungus gardens have long been studied and feature a gradient of increasing substrate degradation from top to bottom. To further facilitate the study of fungus gardens and enable the understanding of the predigestion process in more detail than currently known, we applied recent mass spectrometry-based approaches and generated a three-dimensional (3D) molecular map of an Atta texana fungus garden to reveal chemical modifications as plant substrates pass through it. The metabolomics approach presented in this study can be applied to study similar processes in natural environments to compare with lab-maintained ecosystems. IMPORTANCE The study of complex ecosystems requires an understanding of the chemical processes involving molecules from several sources. Some of the molecules present in fungus-growing ants' symbiotic system originate from plants. To facilitate the study of fungus gardens from a chemical perspective, we provide a molecular map of an Atta texana fungus garden to reveal chemical modifications as plant substrates pass through it. The metabolomics approach presented in this study can be applied to study similar processes in natural environments.
Collapse
Affiliation(s)
- Andrés Mauricio Caraballo-Rodríguez
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
| | - Sara P. Puckett
- Division of Medicinal Chemistry, Department of Pharmaceutical Sciences, University of Connecticut, Storrs, Connecticut, USA
| | - Kathleen E. Kyle
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Daniel Petras
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
- Scripps Institution of Oceanography, University of California San Diego, La Jolla, California, USA
- CMFI Cluster of Excellence, Interfaculty Institute of Microbiology and Medicine, University of Tuebingen, Tuebingen, Germany
| | - Ricardo da Silva
- School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, SP, Brazil
| | - Louis-Félix Nothias
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
| | - Madeleine Ernst
- Section for Clinical Mass Spectrometry, Danish Center for Neonatal Screening, Department of Congenital Disorders, Statens Serum Institut, Copenhagen, Denmark
| | | | - Anupriya Tripathi
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
- Division of Biological Sciences, University of California San Diego, La Jolla, California, USA
- Department of Pediatrics, University of California San Diego, La Jolla, California, USA
| | - Mingxun Wang
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
| | - Marcy J. Balunas
- Division of Medicinal Chemistry, Department of Pharmaceutical Sciences, University of Connecticut, Storrs, Connecticut, USA
| | - Jonathan L. Klassen
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Pieter C. Dorrestein
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California, USA
| |
Collapse
|
22
|
de Mendonça DMF, Caixeta MCS, Martins GL, Moreira CC, Kloss TG, Elliot SL. Low Virulence of the Fungi Escovopsis and Escovopsioides to a Leaf-Cutting Ant-Fungus Symbiosis. Front Microbiol 2021; 12:673445. [PMID: 34394025 PMCID: PMC8358438 DOI: 10.3389/fmicb.2021.673445] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2021] [Accepted: 07/06/2021] [Indexed: 01/22/2023] Open
Abstract
Eusocial insects interact with a diversity of parasites that can threaten their survival and reproduction. The amount of harm these parasites cause to their hosts (i.e., their virulence) can be influenced by numerous factors, such as the ecological context in which the parasite and its host are inserted. Leaf-cutting ants (genera Atta, Acromyrmex and Amoimyrmex, Attini: Formicidae) are an example of a eusocial insect whose colonies are constantly threatened by parasites. The fungi Escovopsis and Escovopsioides (Ascomycota: Hypocreales) are considered a highly virulent parasite and an antagonist, respectively, to the leaf-cutting ants' fungal cultivar, Leucoagaricus gongylophorus (Basidiomycota: Agaricales). Since Escovopsis and Escovopsioides are common inhabitants of healthy colonies that can live for years, we expect them to have low levels of virulence. However, this virulence could vary depending on ecological context. We therefore tested two hypotheses: (i) Escovopsis and Escovopsioides are of low virulence to colonies; (ii) virulence increases as colony complexity decreases. For this, we used three levels of complexity: queenright colonies (fungus garden with queen and workers), queenless colonies (fungus garden and workers, without queen) and fungus gardens (without any ants). Each was inoculated with extremely high concentrations of conidia of Escovopsis moelleri, Escovopsioides nivea, the mycoparasitic fungus Trichoderma longibrachiatum or a blank control. We found that these fungi were of low virulence to queenright colonies. The survival of queenless colonies was decreased by E. moelleri and fungus gardens were suppressed by all treatments. Moreover, E. nivea and T. longibrachiatum seemed to be less aggressive than E. moelleri, observed both in vivo and in vitro. The results highlight the importance of each element (queen, workers and fungus garden) in the leaf-cutting ant-fungus symbiosis. Most importantly, we showed that Escovopsis may not be virulent to healthy colonies, despite commonly being described as such, with the reported virulence of Escovopsis being due to poor colony conditions in the field or in laboratory experiments.
Collapse
Affiliation(s)
| | | | | | - Camila Costa Moreira
- Department of Entomology, Federal University of Viçosa, Viçosa, Brazil.,Department of Entomology and Acarology, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil
| | - Thiago Gechel Kloss
- Department of Biological Sciences, Minas Gerais State University, Ubá, Brazil
| | - Simon Luke Elliot
- Department of Entomology, Federal University of Viçosa, Viçosa, Brazil
| |
Collapse
|
23
|
Yuan X, Zhang X, Liu X, Dong Y, Yan Z, Lv D, Wang P, Li Y. Comparison of Gut Bacterial Communities of Grapholita molesta (Lepidoptera: Tortricidae) Reared on Different Host Plants. Int J Mol Sci 2021; 22:ijms22136843. [PMID: 34202141 PMCID: PMC8268091 DOI: 10.3390/ijms22136843] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Revised: 06/14/2021] [Accepted: 06/22/2021] [Indexed: 01/06/2023] Open
Abstract
Intestinal symbiotic bacteria have played an important role in the digestion, immunity detoxification, mating, and reproduction of insects during long-term coevolution. The oriental fruit moth, Grapholita molesta, is an important fruit tree pest worldwide. However, the composition of the G. molesta microbial community, especially of the gut microbiome, remains unclear. To explore the differences of gut microbiota of G. molesta when reared on different host plants, we determined the gut bacterial structure when G. molesta was transferred from an artificial diet to different host plants (apples, peaches, nectarines, crisp pears, plums, peach shoots) by amplicon sequencing technology. The results showed that Proteobacteria and Firmicutes are dominant in the gut microbiota of G. molesta. Plum-feeding G. molesta had the highest richness and diversity of gut microbiota, while apple-feeding G. molesta had the lowest. PCoA and PERMANOVA analysis revealed that there were significant differences in the gut microbiota structure of G. molesta on different diets. PICRUSt2 analysis indicated that most of the functional prediction pathways were concentrated in metabolic and cellular processes. Our results confirmed that gut bacterial communities of G. molesta can be influenced by host diets and may play an important role in host adaptation.
Collapse
Affiliation(s)
- Xiangqun Yuan
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Xuan Zhang
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Xueying Liu
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Yanlu Dong
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Zizheng Yan
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Dongbiao Lv
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| | - Ping Wang
- Department of Entomology, Cornell University, Ithaca, NY 14850, USA
| | - Yiping Li
- Key Laboratory of Integrated Pest Management on Crops in Northwestern Loess Plateau, Ministry of Agriculture, Northwest A&F University, Yangling 712100, China
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, Northwest A&F University, Yangling 712100, China
| |
Collapse
|
24
|
Burkholderia from Fungus Gardens of Fungus-Growing Ants Produces Antifungals That Inhibit the Specialized Parasite Escovopsis. Appl Environ Microbiol 2021; 87:e0017821. [PMID: 33962985 DOI: 10.1128/aem.00178-21] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023] Open
Abstract
Within animal-associated microbiomes, the functional roles of specific microbial taxa are often uncharacterized. Here, we use the fungus-growing ant system, a model for microbial symbiosis, to determine the potential defensive roles of key bacterial taxa present in the ants' fungus gardens. Fungus gardens serve as an external digestive system for the ants, with mutualistic fungi in the genus Leucoagaricus converting the plant substrate into energy for the ants. The fungus garden is host to specialized parasitic fungi in the genus Escovopsis. Here, we examine the potential role of Burkholderia spp. that occur within ant fungus gardens in inhibiting Escovopsis. We isolated members of the bacterial genera Burkholderia and Paraburkholderia from 50% of the 52 colonies sampled, indicating that members of the family Burkholderiaceae are common inhabitants in the fungus gardens of a diverse range of fungus-growing ant genera. Using antimicrobial inhibition bioassays, we found that 28 out of 32 isolates inhibited at least one Escovopsis strain with a zone of inhibition greater than 1 cm. Genomic assessment of fungus garden-associated Burkholderiaceae indicated that isolates with strong inhibition all belonged to the genus Burkholderia and contained biosynthetic gene clusters that encoded the production of two antifungals: burkholdine1213 and pyrrolnitrin. Organic extracts of cultured isolates confirmed that these compounds are responsible for antifungal activities that inhibit Escovopsis but, at equivalent concentrations, not Leucoagaricus spp. Overall, these new findings, combined with previous evidence, suggest that members of the fungus garden microbiome play an important role in maintaining the health and function of fungus-growing ant colonies. IMPORTANCE Many organisms partner with microbes to defend themselves against parasites and pathogens. Fungus-growing ants must protect Leucoagaricus spp., the fungal mutualist that provides sustenance for the ants, from a specialized fungal parasite, Escovopsis. The ants take multiple approaches, including weeding their fungus gardens to remove Escovopsis spores, as well as harboring Pseudonocardia spp., bacteria that produce antifungals that inhibit Escovopsis. In addition, a genus of bacteria commonly found in fungus gardens, Burkholderia, is known to produce secondary metabolites that inhibit Escovopsis spp. In this study, we isolated Burkholderia spp. from fungus-growing ants, assessed the isolates' ability to inhibit Escovopsis spp., and identified two compounds responsible for inhibition. Our findings suggest that Burkholderia spp. are often found in fungus gardens, adding another possible mechanism within the fungus-growing ant system to suppress the growth of the specialized parasite Escovopsis.
Collapse
|
25
|
Jiménez-Gómez I, Barcoto MO, Montoya QV, Goes AC, Monteiro LSVE, Bueno OC, Rodrigues A. Host Susceptibility Modulates Escovopsis Pathogenic Potential in the Fungiculture of Higher Attine Ants. Front Microbiol 2021; 12:673444. [PMID: 34194409 PMCID: PMC8238408 DOI: 10.3389/fmicb.2021.673444] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2021] [Accepted: 05/14/2021] [Indexed: 12/17/2022] Open
Abstract
Health and disease emerge from intricate interactions between genotypes, phenotypes, and environmental features. The outcomes of such interactions are context-dependent, existing as a dynamic continuum ranging from benefits to damage. In host-microbial interactions, both the host and environmental conditions modulate the pathogenic potential of a microorganism. Microbial interactions are the core of the agricultural systems of ants in the subtribe Attina, which cultivate basidiomycete fungi for food. The fungiculture environment harbors a diverse microbial community, including fungi in the genus Escovopsis that has been studied as damage-causing agent. Here, we consider the ant colony as a host and investigate to what extent its health impacts the dynamics and outcomes of host-Escovopsis interactions. We found that different ant fungal cultivars vary in susceptibility to the same Escovopsis strains in plate-assays interactions. In subcolony-Escovopsis interactions, while healthy subcolonies gradually recover from infection with different concentrations of Escovopsis conidia, insecticide-treated subcolonies evidenced traits of infection and died within 7 days. The opportunistic nature of Escovopsis infections indicates that diseases in attine fungiculture are a consequence of host susceptibility, rather than the effect of a single microbial agent. By addressing the host susceptibility as a major modulator of Escovopsis pathogenesis, our findings expand the understanding of disease dynamics within attine colonies.
Collapse
Affiliation(s)
- Irina Jiménez-Gómez
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil.,Centro de Investigación en Dinámica Celular, Universidad Autónoma del Estado de Morelos, Cuernavaca, Mexico
| | - Mariana O Barcoto
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Quimi V Montoya
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Aryel C Goes
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Lana S V E Monteiro
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Odair C Bueno
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| | - Andre Rodrigues
- Department of General and Applied Biology, São Paulo State University (UNESP), Rio Claro, Brazil
| |
Collapse
|
26
|
Rajeswari G, Jacob S, Chandel AK, Kumar V. Unlocking the potential of insect and ruminant host symbionts for recycling of lignocellulosic carbon with a biorefinery approach: a review. Microb Cell Fact 2021; 20:107. [PMID: 34044834 PMCID: PMC8161579 DOI: 10.1186/s12934-021-01597-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Accepted: 05/17/2021] [Indexed: 12/02/2022] Open
Abstract
Uprising fossil fuel depletion and deterioration of ecological reserves supply have led to the search for alternative renewable and sustainable energy sources and chemicals. Although first generation biorefinery is quite successful commercially in generating bulk of biofuels globally, the food versus fuel debate has necessitated the use of non-edible feedstocks, majorly waste biomass, for second generation production of biofuels and chemicals. A diverse class of microbes and enzymes are being exploited for biofuels production for a series of treatment process, however, the conversion efficiency of wide range of lignocellulosic biomass (LCB) and consolidated way of processing remains challenging. There were lot of research efforts in the past decade to scour for potential microbial candidate. In this context, evolution has developed the gut microbiota of several insects and ruminants that are potential LCB degraders host eco-system to overcome its host nutritional constraints, where LCB processed by microbiomes pretends to be a promising candidate. Synergistic microbial symbionts could make a significant contribution towards recycling the renewable carbon from distinctly abundant recalcitrant LCB. Several studies have assessed the bioprospection of innumerable gut symbionts and their lignocellulolytic enzymes for LCB degradation. Though, some reviews exist on molecular characterization of gut microbes, but none of them has enlightened the microbial community design coupled with various LCB valorization which intensifies the microbial diversity in biofuels application. This review provides a deep insight into the significant breakthroughs attained in enrichment strategy of gut microbial community and its molecular characterization techniques which aids in understanding the holistic microbial community dynamics. Special emphasis is placed on gut microbial role in LCB depolymerization strategies to lignocellulolytic enzymes production and its functional metagenomic data mining eventually generating the sugar platform for biofuels and renewable chemicals production.
Collapse
Affiliation(s)
- Gunasekaran Rajeswari
- Department of Biotechnology, School of Bioengineering, College of Engineering and Technology, Faculty of Engineering and Technology, SRM Institute of Science and Technology, SRM Nagar, Chengalpattu Dist. , Kattankulathur, 603203, Tamil Nadu, India
| | - Samuel Jacob
- Department of Biotechnology, School of Bioengineering, College of Engineering and Technology, Faculty of Engineering and Technology, SRM Institute of Science and Technology, SRM Nagar, Chengalpattu Dist. , Kattankulathur, 603203, Tamil Nadu, India.
| | - Anuj Kumar Chandel
- Department of Biotechnology, Engineering School of Lorena (EEL), University of São Paulo, Lorena, 12.602.810, Brazil
| | - Vinod Kumar
- School of Water, Energy and Environment, Cranfield University, Cranfield, MK43 0AL, UK.
| |
Collapse
|
27
|
Li H, Young SE, Poulsen M, Currie CR. Symbiont-Mediated Digestion of Plant Biomass in Fungus-Farming Insects. ANNUAL REVIEW OF ENTOMOLOGY 2021; 66:297-316. [PMID: 32926791 DOI: 10.1146/annurev-ento-040920-061140] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Feeding on living or dead plant material is widespread in insects. Seminal work on termites and aphids has provided profound insights into the critical nutritional role that microbes play in plant-feeding insects. Some ants, beetles, and termites, among others, have evolved the ability to use microbes to gain indirect access to plant substrate through the farming of a fungus on which they feed. Recent genomic studies, including studies of insect hosts and fungal and bacterial symbionts, as well as metagenomics and proteomics, have provided important insights into plant biomass digestion across insect-fungal mutualisms. Not only do advances in understanding of the divergent and complementary functions of complex symbionts reveal the mechanism of how these herbivorous insects catabolize plant biomass, but these symbionts also represent a promising reservoir for novel carbohydrate-active enzyme discovery, which is of considerable biotechnological interest.
Collapse
Affiliation(s)
- Hongjie Li
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China;
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA; ,
- Department of Energy Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, Wisconsin 53726, USA
| | - Soleil E Young
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA; ,
| | - Michael Poulsen
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, 2100 Copenhagen East, Denmark;
| | - Cameron R Currie
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA; ,
- Department of Energy Great Lakes Bioenergy Research Center, Wisconsin Energy Institute, University of Wisconsin-Madison, Madison, Wisconsin 53726, USA
| |
Collapse
|
28
|
Cini A, Meriggi N, Bacci G, Cappa F, Vitali F, Cavalieri D, Cervo R. Gut microbial composition in different castes and developmental stages of the invasive hornet Vespa velutina nigrithorax. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 745:140873. [PMID: 32758760 DOI: 10.1016/j.scitotenv.2020.140873] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Revised: 07/08/2020] [Accepted: 07/08/2020] [Indexed: 05/16/2023]
Abstract
Social insects are successful animal invaders. Their survival and success, and in some cases also their impact on invaded ecosystem functioning, is often mediated by symbiosis with microorganisms. Here, we report a comprehensive comparative characterization of the gut microbial communities of different castes and developmental stages of the invasive hornet Vespa velutina nigrithorax. The species recently colonized Europe, becoming a high ecological and economic concern, as it threatens pollinator survival and competes with native hornet species. We used targeted meta-genomics to describe the yeasts and bacteria gut communities of individuals of different reproductive phenotypes (workers and future queens), life stages (larvae, newly emerged individuals and adults) and colony non-living samples (nest paper and larval faeces). Bacilli, Gammaproteobacteria, Actinobacteria, Alphaproteobacteria were the most abundant classes of bacteria, and Saccharomycetes, Dothideomycetes, Tremellomycetes and Eurotiomycetes were the most represented yeast classes. We found that the microbial compositions significantly differ across developmental stages and castes, with yeast and bacterial communities switching in frequency and abundance during ontogeny and according to reproductive phenotype. Moreover, the gut microbial communities poorly mirror those found in the nest, suggesting that hornets possess a specific microbial signature. Our results provide the first metagenomic resource of the microbiome of V. velutina in Europe and suggest the importance of considering life stages, reproductive phenotypes and nest influence in order to obtain a comprehensive picture of social insect microbial communities.
Collapse
Affiliation(s)
- Alessandro Cini
- Centre for Biodiversity and Environment Research, University College London, Gower Street, London WC1E 6BT, UK.
| | - Niccolò Meriggi
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy
| | - Giovanni Bacci
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy
| | - Federico Cappa
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy
| | - Francesco Vitali
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy; Institute of Biology and Agrarian Biotechnology, National Research Council (IBBA-CNR), Via Moruzzi 1, 56124 Pisa, Italy
| | - Duccio Cavalieri
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy.
| | - Rita Cervo
- Department of Biology, University of Florence, Via Madonna del Piano, 50019 Firenze, Italy
| |
Collapse
|
29
|
Insects' potential: Understanding the functional role of their gut microbiome. J Pharm Biomed Anal 2020; 194:113787. [PMID: 33272789 DOI: 10.1016/j.jpba.2020.113787] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2020] [Revised: 11/13/2020] [Accepted: 11/17/2020] [Indexed: 12/17/2022]
Abstract
The study of insect-associated microbial communities is a field of great importance in agriculture, principally because of the role insects play as pests. In addition, there is a recent focus on the potential of the insect gut microbiome in areas such as biotechnology, given some microorganisms produce molecules with biotechnological and industrial applications, and also in biomedicine, since some bacteria and fungi are a reservoir of antibiotic resistance genes (ARGs). To date, most studies aiming to characterize the role of the gut microbiome of insects have been based on high-throughput sequencing of the 16S rRNA gene and/or metagenomics. However, recently functional approaches such as metatranscriptomics, metaproteomics and metabolomics have also been employed. Besides providing knowledge about the taxonomic distribution of microbial populations, these techniques also reveal their functional and metabolic capabilities. This information is essential to gain a better understanding of the role played by microbes comprising the microbial communities in their hosts, as well as to indicate their possible exploitation. This review provides an overview of how far we have come in characterizing insect gut functionality through omics, as well as the challenges and future perspectives in this field.
Collapse
|
30
|
Khadempour L, Fan H, Keefover-Ring K, Carlos-Shanley C, Nagamoto NS, Dam MA, Pupo MT, Currie CR. Metagenomics Reveals Diet-Specific Specialization of Bacterial Communities in Fungus Gardens of Grass- and Dicot-Cutter Ants. Front Microbiol 2020; 11:570770. [PMID: 33072030 PMCID: PMC7541895 DOI: 10.3389/fmicb.2020.570770] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2020] [Accepted: 08/20/2020] [Indexed: 11/13/2022] Open
Abstract
Leaf-cutter ants in the genus Atta are dominant herbivores in the Neotropics. While most species of Atta cut dicots to incorporate into their fungus gardens, some species specialize on grasses. Here we examine the bacterial community associated with the fungus gardens of grass- and dicot-cutter ants to examine how changes in substrate input affect the bacterial community. We sequenced the metagenomes of 12 Atta fungus gardens, across four species of ants, with a total of 5.316 Gbp of sequence data. We show significant differences in the fungus garden bacterial community composition between dicot- and grass-cutter ants, with grass-cutter ants having lower diversity. Reflecting this difference in community composition, the bacterial functional profiles between the fungus gardens are significantly different. Specifically, grass-cutter ant fungus garden metagenomes are particularly enriched for genes responsible for amino acid, siderophore, and terpenoid biosynthesis while dicot-cutter ant fungus gardens metagenomes are enriched in genes involved in membrane transport. Differences between community composition and functional capacity of the bacteria in the two types of fungus gardens reflect differences in the substrates that the ants incorporated. These results show that different substrate inputs matter for fungus garden bacteria and shed light on the potential role of bacteria in mediating the ants’ transition to the use of a novel substrate.
Collapse
Affiliation(s)
- Lily Khadempour
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, United States.,Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, United States.,Department of Earth and Environmental Sciences, Rutgers University, Newark, Newark, NJ, United States
| | - Huan Fan
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, United States.,Center for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Yunnan, China
| | - Ken Keefover-Ring
- Departments of Botany and Geography, University of Wisconsin-Madison, Madison, WI, United States
| | - Camila Carlos-Shanley
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, United States.,Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, United States.,Department of Biology, Texas State University, San Marcos, TX, United States
| | - Nilson S Nagamoto
- Department of Plant Protection, São Paulo State University, Botucatu, Brazil
| | - Miranda A Dam
- Department of Nutritional Sciences, University of Wisconsin-Madison, Madison, WI, United States
| | - Monica T Pupo
- School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, Brazil
| | - Cameron R Currie
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, United States.,Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, United States
| |
Collapse
|
31
|
Francoeur CB, Khadempour L, Moreira-Soto RD, Gotting K, Book AJ, Pinto-Tomás AA, Keefover-Ring K, Currie CR. Bacteria Contribute to Plant Secondary Compound Degradation in a Generalist Herbivore System. mBio 2020; 11:e02146-20. [PMID: 32934088 PMCID: PMC7492740 DOI: 10.1128/mbio.02146-20] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Accepted: 08/11/2020] [Indexed: 02/07/2023] Open
Abstract
Herbivores must overcome a variety of plant defenses, including coping with plant secondary compounds (PSCs). To help detoxify these defensive chemicals, several insect herbivores are known to harbor gut microbiota with the metabolic capacity to degrade PSCs. Leaf-cutter ants are generalist herbivores, obtaining sustenance from specialized fungus gardens that act as external digestive systems and which degrade the diverse collection of plants foraged by the ants. There is in vitro evidence that certain PSCs harm Leucoagaricus gongylophorus, the fungal cultivar of leaf-cutter ants, suggesting a role for the Proteobacteria-dominant bacterial community present within fungus gardens. In this study, we investigated the ability of symbiotic bacteria present within fungus gardens of leaf-cutter ants to degrade PSCs. We cultured fungus garden bacteria, sequenced the genomes of 42 isolates, and identified genes involved in PSC degradation, including genes encoding cytochrome P450 enzymes and genes in geraniol, cumate, cinnamate, and α-pinene/limonene degradation pathways. Using metatranscriptomic analysis, we showed that some of these degradation genes are expressed in situ Most of the bacterial isolates grew unhindered in the presence of PSCs and, using gas chromatography-mass spectrometry (GC-MS), we determined that isolates from the genera Bacillus, Burkholderia, Enterobacter, Klebsiella, and Pseudomonas degrade α-pinene, β-caryophyllene, or linalool. Using a headspace sampler, we show that subcolonies of fungus gardens reduced α-pinene and linalool over a 36-h period, while L. gongylophorus strains alone reduced only linalool. Overall, our results reveal that the bacterial communities in fungus gardens play a pivotal role in alleviating the effect of PSCs on the leaf-cutter ant system.IMPORTANCE Leaf-cutter ants are dominant neotropical herbivores capable of deriving energy from a wide range of plant substrates. The success of leaf-cutter ants is largely due to their external gut, composed of key microbial symbionts, specifically, the fungal mutualist L. gongylophorus and a consistent bacterial community. Both symbionts are known to have critical roles in extracting energy from plant material, yet comparatively little is known about their roles in the detoxification of plant secondary compounds. In this study, we assessed if the bacterial communities associated with leaf-cutter ant fungus gardens can degrade harmful plant chemicals. We identify plant secondary compound detoxification in leaf-cutter ant gardens as a process that depends on the degradative potential of both the bacterial community and L. gongylophorus Our findings suggest that the fungus garden and its associated microbial community influence the generalist foraging abilities of the ants, underscoring the importance of microbial symbionts in plant substrate suitability for herbivores.
Collapse
Affiliation(s)
- Charlotte B Francoeur
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Lily Khadempour
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Rolando D Moreira-Soto
- Sección de Entomología Medica, Departamento de Parasitología, Facultad de Microbiología, Universidad de Costa Rica, San José, Costa Rica
| | - Kirsten Gotting
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA
- Laboratory of Genetics, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Adam J Book
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Adrián A Pinto-Tomás
- Centro de Investigación en Estructuras Microscópicas, Universidad de Costa Rica, San José, Costa Rica
- Departamento de Bioquímica, Facultad de Medicina, Universidad de Costa Rica, San José, Costa Rica
- Centro de Investigación en Biología Celular y Molecular, Universidad de Costa Rica, San José, Costa Rica
| | - Ken Keefover-Ring
- Departments of Botany and Geography, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Cameron R Currie
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA
- Department of Energy Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin, USA
| |
Collapse
|
32
|
High Prevalence of Pantoea in Diaphorina citri (Hemiptera: Liviidae): Vector of Citrus Huanglongbing Disease. Curr Microbiol 2020; 77:1525-1531. [DOI: 10.1007/s00284-020-01969-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Accepted: 03/25/2020] [Indexed: 11/26/2022]
|
33
|
Fungus-growing insects host a distinctive microbiota apparently adapted to the fungiculture environment. Sci Rep 2020; 10:12384. [PMID: 32709946 PMCID: PMC7381635 DOI: 10.1038/s41598-020-68448-7] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Accepted: 06/24/2020] [Indexed: 01/09/2023] Open
Abstract
Some lineages of ants, termites, and beetles independently evolved a symbiotic association with lignocellulolytic fungi cultivated for food, in a lifestyle known as fungiculture. Fungus-growing insects' symbiosis also hosts a bacterial community thought to integrate their physiology. Similarities in taxonomic composition support the microbiota of fungus-growing insects as convergent, despite differences in fungus-rearing by these insects. Here, by comparing fungus-growing insects to several hosts ranging diverse dietary patterns, we investigate whether the microbiota taxonomic and functional profiles are characteristic of the fungiculture environment. Compared to other hosts, the microbiota associated with fungus-growing insects presents a distinctive taxonomic profile, dominated by Gammaproteobacteria at class level and by Pseudomonas at genera level. Even with a functional profile presenting similarities with the gut microbiota of herbivorous and omnivorous hosts, some differentially abundant features codified by the microbiota of fungus-growing insects suggest these communities occupying microhabitats that are characteristic of fungiculture. These features include metabolic pathways involved in lignocellulose breakdown, detoxification of plant secondary metabolites, metabolism of simple sugars, fungal cell wall deconstruction, biofilm formation, antimicrobials biosynthesis, and metabolism of diverse nutrients. Our results suggest that the microbiota could be functionally adapted to the fungiculture environment, codifying metabolic pathways potentially relevant to the fungus-growing insects' ecosystems functioning.
Collapse
|
34
|
Wang X, Sun S, Yang X, Cheng J, Wei H, Li Z, Michaud JP, Liu X. Variability of Gut Microbiota Across the Life Cycle of Grapholita molesta (Lepidoptera: Tortricidae). Front Microbiol 2020; 11:1366. [PMID: 32714300 PMCID: PMC7340173 DOI: 10.3389/fmicb.2020.01366] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Accepted: 05/27/2020] [Indexed: 12/11/2022] Open
Abstract
Grapholita molesta, the oriental fruit moth, is a serious global pest of many Rosaceae fruit trees. Gut microorganisms play important roles in host nutrition, digestion, detoxification, and resistance to pathogens. However, there are few studies on the microbiota of G. molesta, particularly during metamorphosis. Here, the diversity of gut microbiota across the holometabolous life cycle of G. molesta was investigated comprehensively by Illumina high-throughput sequencing technology. The results showed that the microbiota associated with eggs had a high number of operational taxonomic units (OTUs). OTU and species richness in early-instar larvae (first and second instars) were significantly higher than those in late-instar larvae (third to fifth instars). Species richness increased again in male pupae and adults, apparently during the process of metamorphosis, compared to late-instar larvae. Proteobacteria and Firmicutes were the dominant phyla in the gut and underwent notable changes during metamorphosis. At the genus level, gut microbial community shifts from Gluconobacter and Pantoea in early-instar larvae to Enterococcus and Enterobacter in late-instar larvae and to Serratia in pupae were apparent, in concert with host developmental changes. Principal coordinate analysis (PCoA) and linear discriminant analysis effect size (LEfSe) analyses confirmed the differences in the structure of gut microbiota across different developmental stages. In addition, sex-dependent bacterial community differences were observed. Microbial interaction network analysis showed different correlations among intestinal microbes at each developmental stage of G. molesta, which may result from the different abundance and diversity of gut microbiota at different life stages. Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt) analysis indicated that most functional prediction categories of gut microbiota were related to membrane transport, carbohydrate and amino acid metabolism, and DNA replication and repair. Bacteria isolated by conventional culture-dependent methods belonged to Proteobacteria, Firmicutes, and Actinobacteria, which was consistent with high-throughput sequencing results. In conclusion, exploration of gut bacterial community composition in the gut of G. molesta should shed light into deeper understanding about the intricate associations between microbiota and host and might provide clues to the development of novel pest management strategies against fruit borers.
Collapse
Affiliation(s)
- Xueli Wang
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - Shengjie Sun
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - Xuelin Yang
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - Jie Cheng
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - Hongshuang Wei
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - Zhen Li
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| | - J P Michaud
- Department of Entomology, Agricultural Research Center-Hays, Kansas State University, Hays, KS, United States
| | - Xiaoxia Liu
- Department of Entomology and MOA Key Laboratory of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing, China
| |
Collapse
|
35
|
Exploring the effect of plant substrates on bacterial community structure in termite fungus-combs. PLoS One 2020; 15:e0232329. [PMID: 32357167 PMCID: PMC7194444 DOI: 10.1371/journal.pone.0232329] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Accepted: 04/14/2020] [Indexed: 11/19/2022] Open
Abstract
Fungus-cultivating termites are successful herbivores largely rely on the external symbiotic fungus-combs to decompose plant polysaccharides. The comb harbors both fungi and bacteria. However, the complementary roles and functions of the bacteria are out of the box. To this purpose, we look into different decomposition stages of fungus-combs using high-throughput sequencing of the 16S rRNA gene to examine bacterial community structure. We also explored the bacterial response to physicochemical indexes (such as moisture, ash content and organic matter) and plant substrates (leaves or branches or mix food). Some specific families such as Lachnospiraceae, Ruminococcaceae, and Peptostreptococcaceae may be involved in lignocellulose degradation, whereas Burkholderiaceae may be associated with aromatic compounds degradation. We observed that as the comb mature there is a shift of community composition which may be an adjustment of specific bacteria to deal with different lignocellulosic material. Our results indicated that threshold amount of physicochemical indexes are beneficial for bacterial diversity but too high moisture, low organic matter and high ash content may reduce their diversity. Furthermore, the average highest bacterial diversity was recorded from the comb built by branches followed by mix food and leaves. Besides, this study could help in the use of bacteria from the comb of fungus-cultivating termites in forestry and agricultural residues making them easier to digest as fodder.
Collapse
|
36
|
Chen Q, Zhao H, Wen M, Li J, Zhou H, Wang J, Zhou Y, Liu Y, Du L, Kang H, Zhang J, Cao R, Xu X, Zhou JJ, Ren B, Wang Y. Genome of the webworm Hyphantria cunea unveils genetic adaptations supporting its rapid invasion and spread. BMC Genomics 2020; 21:242. [PMID: 32183717 PMCID: PMC7079503 DOI: 10.1186/s12864-020-6629-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2019] [Accepted: 02/26/2020] [Indexed: 02/07/2023] Open
Abstract
BACKGROUND The fall webworm Hyphantria cunea is an invasive and polyphagous defoliator pest that feeds on nearly any type of deciduous tree worldwide. The silk web of H. cunea aids its aggregating behavior, provides thermal regulation and is regarded as one of causes for its rapid spread. In addition, both chemosensory and detoxification genes are vital for host adaptation in insects. RESULTS Here, a high-quality genome of H. cunea was obtained. Silk-web-related genes were identified from the genome, and successful silencing of the silk protein gene HcunFib-H resulted in a significant decrease in silk web shelter production. The CAFE analysis showed that some chemosensory and detoxification gene families, such as CSPs, CCEs, GSTs and UGTs, were expanded. A transcriptome analysis using the newly sequenced H. cunea genome showed that most chemosensory genes were specifically expressed in the antennae, while most detoxification genes were highly expressed during the feeding peak. Moreover, we found that many nutrient-related genes and one detoxification gene, HcunP450 (CYP306A1), were under significant positive selection, suggesting a crucial role of these genes in host adaptation in H. cunea. At the metagenomic level, several microbial communities in H. cunea gut and their metabolic pathways might be beneficial to H. cunea for nutrient metabolism and detoxification, and might also contribute to its host adaptation. CONCLUSIONS These findings explain the host and environmental adaptations of H. cunea at the genetic level and provide partial evidence for the cause of its rapid invasion and potential gene targets for innovative pest management strategies.
Collapse
Affiliation(s)
- Qi Chen
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Hanbo Zhao
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Ming Wen
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jiaxin Li
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Haifeng Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jiatong Wang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yuxin Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yulin Liu
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Lixin Du
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Hui Kang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jian Zhang
- School of Life Sciences, Changchun Normal University, Changchun, Jilin, China
| | - Rui Cao
- Meihekou Forest Pest Control Station, Changchun, Jilin, China
| | - Xiaoming Xu
- Garden and Plant Protection Station of Changchun, Changchun, Jilin, China
| | - Jing-Jiang Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
- Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - Bingzhong Ren
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yinliang Wang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China.
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China.
| |
Collapse
|
37
|
Horgan FG, Srinivasan TS, Crisol‐Martínez E, Almazan MLP, Ramal AF, Oliva R, Quibod IL, Bernal CC. Microbiome responses during virulence adaptation by a phloem-feeding insect to resistant near-isogenic rice lines. Ecol Evol 2019; 9:11911-11929. [PMID: 31695897 PMCID: PMC6822046 DOI: 10.1002/ece3.5699] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Revised: 08/09/2019] [Accepted: 09/03/2019] [Indexed: 01/21/2023] Open
Abstract
The microbiomes of phloem-feeding insects include functional bacteria and yeasts essential for herbivore survival and development. Changes in microbiome composition are implicated in virulence adaptation by herbivores to host plant species or host populations (including crop varieties). We examined patterns in adaptation by the green leafhopper, Nephotettix virescens, to near-isogenic rice lines (NILs) with one or two resistance genes and the recurrent parent T65, without resistance genes. Only the line with two resistance genes was effective in reducing leafhopper fitness. After 20 generations on the resistant line, selected leafhoppers attained similar survival, weight gain, and egg laying to leafhoppers that were continually reared on the susceptible recurrent parent, indicating that they had adapted to the resistant host. By sequencing the 16s rRNA gene, we described the microbiome of leafhoppers from colonies associated with five collection sites, and continually reared or switched between NILs. The microbiomes included 69-119 OTUs of which 44 occurred in ≥90% of samples. Of these, 14 OTUs were assigned to the obligate symbiont Candidatus sulcia clade. After 20 generations of selection, collection site had a greater effect than host plant on microbiome composition. Six bacteria genera, including C. sulcia, were associated with leafhopper virulence. However, there was significant within-treatment, site-related variability in the prevalence of these taxa such that the mechanisms underlying their association with virulence remain to be determined. Our results imply that these taxa are associated with leafhopper nutrition. Ours is the first study to describe microbiome diversity and composition in rice leafhoppers. We discuss our results in light of the multiple functions of herbivore microbiomes during virulence adaptation in insect herbivores.
Collapse
Affiliation(s)
- Finbarr G. Horgan
- EcoLaVerna Integral Restoration EcologyKildinanIreland
- University of Technology SydneySydneyNSWAustralia
| | - Thanga Suja Srinivasan
- Centre for Plant Molecular Biology and BiotechnologyTamil Nadu Agricultural UniversityCoimbatoreIndia
- International Rice Research InstituteMetro ManilaPhilippines
- Centre for Climate Change StudiesSathyabama Institute of Science and TechnologyChennaiIndia
| | - Eduardo Crisol‐Martínez
- EcoLaVerna Integral Restoration EcologyKildinanIreland
- COEXPHAL (Association of Vegetable and Fruit Growers of Almeria)AlmeriaSpain
| | | | - Angelee Fame Ramal
- School of Environmental Science and ManagementUniversity of the PhilippinesLos BañosPhilippines
| | - Ricardo Oliva
- International Rice Research InstituteMetro ManilaPhilippines
| | - Ian L. Quibod
- International Rice Research InstituteMetro ManilaPhilippines
| | | |
Collapse
|
38
|
González CT, Saltonstall K, Fernández-Marín H. Garden microbiomes of Apterostigma dentigerum and Apterostigma pilosum fungus-growing ants (Hymenoptera: Formicidae). J Microbiol 2019; 57:842-851. [PMID: 31377982 DOI: 10.1007/s12275-019-8639-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2018] [Revised: 04/08/2019] [Accepted: 05/03/2019] [Indexed: 12/17/2022]
Abstract
Fungus-growing ants share a complex symbiosis with microbes, including fungal mutualists, antibiotic-producing bacteria, and fungal pathogens. The bacterial communities associated with this symbiosis are poorly understood but likely play important roles in maintaining the health and function of fungal gardens. We studied bacterial communities in gardens of two Apterostigma species, A. dentigerum, and A. pilosum, using next-generation sequencing to evaluate differences between the two ant species, their veiled and no-veiled fungal garden types, and across three collection locations. We also compared different parts of nests to test for homogeneity within nests. Enterobacteriaceae dominated gardens of both species and common OTUs were shared across both species and nest types. However, differences in community diversity were detected between ant species, and in the communities of A. dentigerum veiled and no-veiled nests within sites. Apterostigma pilosum had a higher proportion of Phyllobacteriaceae and differed from A. dentigerum in the proportions of members of the order Clostridiales. Within A. dentigerum, nests with veiled and no-veiled fungus gardens had similar taxonomic profiles but differed in the relative abundance of some groups, with veiled gardens having more Rhodospirillaceae and Hyphomicrobiaceae, and no-veiled having more Xanthomonadaceae and certain genera in the Enterobacteriaceae C. However, bacterial communities in Apterostigma fungal gardens are highly conserved and resemble those of the nests of other attine ants with dominant taxa likely playing a role in biomass degradation and defense. Further work is required to understand and explain how bacterial community composition of fungus-growing nests is maintained.
Collapse
Affiliation(s)
- Cely T González
- Centro de Biodiversidad y Descubrimiento de Drogas, Instituto de Investigaciones Científicas y Servicios de Alta Tecnología, Apartado, 0843-01103, Clayton, Republic of Panama. .,Department of Biotechnology, Acharya Nagarjuna University, Guntur, India. .,Smithsonian Tropical Research Institute, P.O. Box 0843-03092, Amador, Naos, Republic of Panama.
| | - Kristin Saltonstall
- Smithsonian Tropical Research Institute, P.O. Box 0843-03092, Amador, Naos, Republic of Panama
| | - Hermógenes Fernández-Marín
- Centro de Biodiversidad y Descubrimiento de Drogas, Instituto de Investigaciones Científicas y Servicios de Alta Tecnología, Apartado, 0843-01103, Clayton, Republic of Panama.
| |
Collapse
|
39
|
Study Insights into Gastrointestinal Cancer through the Gut Microbiota. BIOMED RESEARCH INTERNATIONAL 2019; 2019:8721503. [PMID: 31341907 PMCID: PMC6612970 DOI: 10.1155/2019/8721503] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 04/22/2019] [Accepted: 05/28/2019] [Indexed: 12/16/2022]
Abstract
The gut microbiome in human is recognized as a “microbial organ” for its roles and contributions in regulating the human homeostasis and metabolism. Gastrointestinal (GI) cancers, especially colorectal cancer (CRC), rank as the most common cancer-related deaths worldwide. Evidences have suggested that the disorder of gut microbiota, also named as “dysbiosis,” is related to the development of a variety of diseases such as inflammatory bowel disease (IBD) and the CRC. However, detailed mechanisms between disease and gut microbiota remain largely unknown. This review introduced the correlation between gastrointestinal diseases and the microbiota in human gut from the recent studies, as well as the roles of microbiota in manipulating the CRC and IBDs development, in order to facilitate future studies and to develop novel methods for the precaution, diagnosis, or even cure of gastrointestinal diseases. Additionally, we also elucidated the possibility of probiotics in treatment against CRC.
Collapse
|
40
|
Agamennone V, Le NG, van Straalen NM, Brouwer A, Roelofs D. Antimicrobial activity and carbohydrate metabolism in the bacterial metagenome of the soil-living invertebrate Folsomia candida. Sci Rep 2019; 9:7308. [PMID: 31086216 PMCID: PMC6513849 DOI: 10.1038/s41598-019-43828-w] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2018] [Accepted: 04/27/2019] [Indexed: 02/07/2023] Open
Abstract
The microbiome associated with an animal's gut and other organs is considered an integral part of its ecological functions and adaptive capacity. To better understand how microbial communities influence activities and capacities of the host, we need more information on the functions that are encoded in a microbiome. Until now, the information about soil invertebrate microbiomes is mostly based on taxonomic characterization, achieved through culturing and amplicon sequencing. Using shotgun sequencing and various bioinformatics approaches we explored functions in the bacterial metagenome associated with the soil invertebrate Folsomia candida, an established model organism in soil ecology with a fully sequenced, high-quality genome assembly. Our metagenome analysis revealed a remarkable diversity of genes associated with antimicrobial activity and carbohydrate metabolism. The microbiome also contains several homologs to F. candida genes that were previously identified as candidates for horizontal gene transfer (HGT). We suggest that the carbohydrate- and antimicrobial-related functions encoded by Folsomia's metagenome play a role in the digestion of recalcitrant soil-born polysaccharides and the defense against pathogens, thereby significantly contributing to the adaptation of these animals to life in the soil. Furthermore, the transfer of genes from the microbiome may constitute an important source of new functions for the springtail.
Collapse
Affiliation(s)
- Valeria Agamennone
- Department of Ecological Science, VU University Amsterdam, Amsterdam, The Netherlands.
- Department of Microbiology and Systems Biology, TNO, Zeist, The Netherlands.
| | - Ngoc Giang Le
- Department of Ecological Science, VU University Amsterdam, Amsterdam, The Netherlands
- Institute of Biotechnology, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Nico M van Straalen
- Department of Ecological Science, VU University Amsterdam, Amsterdam, The Netherlands
| | | | - Dick Roelofs
- Department of Ecological Science, VU University Amsterdam, Amsterdam, The Netherlands
| |
Collapse
|
41
|
Moreira AA, Forti LC, Camargo RDS, Nagamoto NS, Caldato N, Castellani MA, Ramos VM. Variation in nest morphology, queen oviposition rates, and fungal species present in incipient colonies of the leaf-cutter ant Atta sexdens. TROPICAL ZOOLOGY 2019. [DOI: 10.1080/03946975.2019.1603622] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Aldenise Alves Moreira
- Laboratory of Entomology, Department of Phytotechny and Zootechny, State University of Southwestern Bahia [Universidade Estadual do Sudoeste da Bahia] (UESB), Vitória da Conquista, Brazil
| | - Luiz Carlos Forti
- Laboratory of Social Insects-Pests, Department of Vegetal Protection, School of Agricultural Sciences, São Paulo State University [Universidade Estadual Paulista] (UNESP), Postal Code 237, Botucatu, SP 18610-034, Brazil
| | - Roberto da Silva Camargo
- Laboratory of Social Insects-Pests, Department of Vegetal Protection, School of Agricultural Sciences, São Paulo State University [Universidade Estadual Paulista] (UNESP), Postal Code 237, Botucatu, SP 18610-034, Brazil
| | - Nilson Satoru Nagamoto
- Laboratory of Social Insects-Pests, Department of Vegetal Protection, School of Agricultural Sciences, São Paulo State University [Universidade Estadual Paulista] (UNESP), Postal Code 237, Botucatu, SP 18610-034, Brazil
| | - Nadia Caldato
- Laboratory of Social Insects-Pests, Department of Vegetal Protection, School of Agricultural Sciences, São Paulo State University [Universidade Estadual Paulista] (UNESP), Postal Code 237, Botucatu, SP 18610-034, Brazil
| | - Maria Aparecida Castellani
- Laboratory of Entomology, Department of Phytotechny and Zootechny, State University of Southwestern Bahia [Universidade Estadual do Sudoeste da Bahia] (UESB), Vitória da Conquista, Brazil
| | - Vania Maria Ramos
- Laboratory of Agricultural Entomology, Agronomy Department, College of Agricultural Sciences, University of Western São Paulo [Universidade do Oeste Paulista] (UNOESTE), Presidente Prudente, São Paulo, Brazil
| |
Collapse
|
42
|
Kumar D, Sun Z, Cao G, Xue R, Hu X, Gong C. Bombyx mori bidensovirus infection alters the intestinal microflora of fifth instar silkworm (Bombyx mori) larvae. J Invertebr Pathol 2019; 163:48-63. [DOI: 10.1016/j.jip.2019.03.004] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Revised: 03/08/2019] [Accepted: 03/09/2019] [Indexed: 01/06/2023]
|
43
|
Matos-Maraví P, Duarte Ritter C, Barnes CJ, Nielsen M, Olsson U, Wahlberg N, Marquina D, Sääksjärvi I, Antonelli A. Biodiversity seen through the perspective of insects: 10 simple rules on methodological choices and experimental design for genomic studies. PeerJ 2019; 7:e6727. [PMID: 31106048 PMCID: PMC6499058 DOI: 10.7717/peerj.6727] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2018] [Accepted: 03/06/2019] [Indexed: 12/18/2022] Open
Abstract
Massively parallel DNA sequencing opens up opportunities for bridging multiple temporal and spatial dimensions in biodiversity research, thanks to its efficiency to recover millions of nucleotide polymorphisms. Here, we identify the current status, discuss the main challenges, and look into future perspectives on biodiversity genomics focusing on insects, which arguably constitute the most diverse and ecologically important group among all animals. We suggest 10 simple rules that provide a succinct step-by-step guide and best-practices to anyone interested in biodiversity research through the study of insect genomics. To this end, we review relevant literature on biodiversity and evolutionary research in the field of entomology. Our compilation is targeted at researchers and students who may not yet be specialists in entomology or molecular biology. We foresee that the genomic revolution and its application to the study of non-model insect lineages will represent a major leap to our understanding of insect diversity.
Collapse
Affiliation(s)
- Pável Matos-Maraví
- Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden
- Gothenburg Global Biodiversity Centre, Gothenburg, Sweden
- Institute of Entomology, Biology Centre CAS, České Budějovice, Czech Republic
| | - Camila Duarte Ritter
- Department of Eukaryotic Microbiology, University of Duisburg-Essen, Essen, Germany
| | | | - Martin Nielsen
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
- Section for Evolutionary Genomics, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Urban Olsson
- Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden
- Gothenburg Global Biodiversity Centre, Gothenburg, Sweden
| | | | - Daniel Marquina
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, Sweden
- Department of Zoology, Stockholm University, Stockholm, Sweden
| | | | - Alexandre Antonelli
- Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden
- Gothenburg Global Biodiversity Centre, Gothenburg, Sweden
- Royal Botanical Garden, Kew, Richmond, Surrey, UK
| |
Collapse
|
44
|
Palmer M, Venter SN, McTaggart AR, Coetzee MPA, Van Wyk S, Avontuur JR, Beukes CW, Fourie G, Santana QC, Van Der Nest MA, Blom J, Steenkamp ET. The synergistic effect of concatenation in phylogenomics: the case in Pantoea. PeerJ 2019; 7:e6698. [PMID: 31024760 PMCID: PMC6474361 DOI: 10.7717/peerj.6698] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2018] [Accepted: 02/26/2019] [Indexed: 11/29/2022] Open
Abstract
With the increased availability of genome sequences for bacteria, it has become routine practice to construct genome-based phylogenies. These phylogenies have formed the basis for various taxonomic decisions, especially for resolving problematic relationships between taxa. Despite the popularity of concatenating shared genes to obtain well-supported phylogenies, various issues regarding this combined-evidence approach have been raised. These include the introduction of phylogenetic error into datasets, as well as incongruence due to organism-level evolutionary processes, particularly horizontal gene transfer and incomplete lineage sorting. Because of the huge effect that this could have on phylogenies, we evaluated the impact of phylogenetic conflict caused by organism-level evolutionary processes on the established species phylogeny for Pantoea, a member of the Enterobacterales. We explored the presence and distribution of phylogenetic conflict at the gene partition and nucleotide levels, by identifying putative inter-lineage recombination events that might have contributed to such conflict. Furthermore, we determined whether smaller, randomly constructed datasets had sufficient signal to reconstruct the current species tree hypothesis or if they would be overshadowed by phylogenetic incongruence. We found that no individual gene tree was fully congruent with the species phylogeny of Pantoea, although many of the expected nodes were supported by various individual genes across the genome. Evidence of recombination was found across all lineages within Pantoea, and provides support for organism-level evolutionary processes as a potential source of phylogenetic conflict. The phylogenetic signal from at least 70 random genes recovered robust, well-supported phylogenies for the backbone and most species relationships of Pantoea, and was unaffected by phylogenetic conflict within the dataset. Furthermore, despite providing limited resolution among taxa at the level of single gene trees, concatenated analyses of genes that were identified as having no signal resulted in a phylogeny that resembled the species phylogeny of Pantoea. This distribution of signal and noise across the genome presents the ideal situation for phylogenetic inference, as the topology from a ≥70-gene concatenated species phylogeny is not driven by single genes, and our data suggests that this finding may also hold true for smaller datasets. We thus argue that, by using a concatenation-based approach in phylogenomics, one can obtain robust phylogenies due to the synergistic effect of the combined signal obtained from multiple genes.
Collapse
Affiliation(s)
- Marike Palmer
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Stephanus N Venter
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Alistair R McTaggart
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa.,Queensland Alliance for Agriculture and Food Innovation, University of Queensland, Brisbane, Queensland, Australia
| | - Martin P A Coetzee
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Stephanie Van Wyk
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Juanita R Avontuur
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Chrizelle W Beukes
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Gerda Fourie
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Quentin C Santana
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Magriet A Van Der Nest
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| | - Jochen Blom
- Bioinformatics and Systems Biology, Justus Liebig Universität Gießen, Giessen, Germany
| | - Emma T Steenkamp
- Department of Biochemistry, Genetics and Microbiology, DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, Gauteng, South Africa
| |
Collapse
|
45
|
da Costa RR, Hu H, Li H, Poulsen M. Symbiotic Plant Biomass Decomposition in Fungus-Growing Termites. INSECTS 2019; 10:E87. [PMID: 30925664 PMCID: PMC6523192 DOI: 10.3390/insects10040087] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 03/05/2019] [Accepted: 03/06/2019] [Indexed: 01/25/2023]
Abstract
Termites are among the most successful animal groups, accomplishing nutrient acquisition through long-term associations and enzyme provisioning from microbial symbionts. Fungus farming has evolved only once in a single termite sub-family: Macrotermitinae. This sub-family has become a dominant decomposer in the Old World; through enzymatic contributions from insects, fungi, and bacteria, managed in an intricate decomposition pathway, the termites obtain near-complete utilisation of essentially any plant substrate. Here we review recent insights into our understanding of the process of plant biomass decomposition in fungus-growing termites. To this end, we outline research avenues that we believe can help shed light on how evolution has shaped the optimisation of plant-biomass decomposition in this complex multipartite symbiosis.
Collapse
Affiliation(s)
- Rafael R da Costa
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark.
| | - Haofu Hu
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark.
| | - Hongjie Li
- Department of Bacteriology, University of Wisconsin⁻Madison, Madison, WI 53706, USA.
| | - Michael Poulsen
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen East, Denmark.
| |
Collapse
|
46
|
Swanson AC, Schwendenmann L, Allen MF, Aronson EL, Artavia‐León A, Dierick D, Fernandez‐Bou AS, Harmon TC, Murillo‐Cruz C, Oberbauer SF, Pinto‐Tomás AA, Rundel PW, Zelikova TJ. Welcome to the
Atta
world: A framework for understanding the effects of leaf‐cutter ants on ecosystem functions. Funct Ecol 2019. [DOI: 10.1111/1365-2435.13319] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Amanda C. Swanson
- Department of Microbiology and Plant Pathology, Center for Conservation Biology University of California Riverside Riverside California
| | | | - Michael F. Allen
- Department of Microbiology and Plant Pathology, Center for Conservation Biology University of California Riverside Riverside California
| | - Emma L. Aronson
- Department of Microbiology and Plant Pathology, Center for Conservation Biology University of California Riverside Riverside California
| | - Allan Artavia‐León
- Center for Research in Cellular and Molecular Biology University of Costa Rica San José Costa Rica
| | - Diego Dierick
- Department of Biological Sciences Florida International University Miami Florida
| | - Angel S. Fernandez‐Bou
- School of Engineering and Environmental Systems Program University of California Merced Merced California
| | - Thomas C. Harmon
- School of Engineering and Environmental Systems Program University of California Merced Merced California
| | - Catalina Murillo‐Cruz
- Center for Research in Cellular and Molecular Biology University of Costa Rica San José Costa Rica
- Center for Research in Microscopic Structures, Biochemistry Department University of Costa Rica San José Costa Rica
| | - Steven F. Oberbauer
- Department of Biological Sciences Florida International University Miami Florida
| | - Adrián A. Pinto‐Tomás
- Center for Research in Cellular and Molecular Biology University of Costa Rica San José Costa Rica
- Center for Research in Microscopic Structures, Biochemistry Department University of Costa Rica San José Costa Rica
- Biochemistry Department, School of Medicine University of Costa Rica San José Costa Rica
| | - Philip W. Rundel
- Department of Ecology and Evolutionary Biology University of California Los Angeles Los Angeles California
| | | |
Collapse
|
47
|
Shapiro JA. No genome is an island: toward a 21st century agenda for evolution. Ann N Y Acad Sci 2019; 1447:21-52. [DOI: 10.1111/nyas.14044] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2018] [Revised: 01/17/2019] [Accepted: 02/02/2019] [Indexed: 12/21/2022]
Affiliation(s)
- James A. Shapiro
- Department of Biochemistry and Molecular BiologyUniversity of Chicago Chicago Illinois
| |
Collapse
|
48
|
Lee KM, Adams M, Klassen JL. Evaluation of DESS as a storage medium for microbial community analysis. PeerJ 2019; 7:e6414. [PMID: 30740279 PMCID: PMC6368006 DOI: 10.7717/peerj.6414] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Accepted: 12/24/2018] [Indexed: 12/14/2022] Open
Abstract
Microbial ecology research requires sampling strategies that accurately represent the microbial community under study. These communities must typically be transported from the collection location to the laboratory and then stored until they can be processed. However, there is a lack of consensus on how best to preserve microbial communities during transport and storage. Here, we evaluated dimethyl sulfoxide, ethylenediamine tetraacetic acid, saturated salt (DESS) solution as a broadly applicable preservative for microbial ecology experiments. We stored fungus gardens grown by the ant Trachymyrmex septentrionalis in DESS, 15% glycerol, and phosphate buffered saline (PBS) to test their impact on the fungus garden microbial community. Variation in microbial community structure due to differences in preservative type was minimal when compared to variation between ant colonies. Additionally, DESS preserved the structure of a defined mock community more faithfully than either 15% glycerol or PBS. DESS is inexpensive, easy to transport, and effective in preserving microbial community structure. We therefore conclude that DESS is a valuable preservative for use in microbial ecology research.
Collapse
Affiliation(s)
- Kevin M Lee
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT, USA
| | - Madison Adams
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT, USA
| | - Jonathan L Klassen
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT, USA
| |
Collapse
|
49
|
High-Quality Draft Genome Sequences of Eight Bacteria Isolated from Fungus Gardens Grown by Trachymyrmex septentrionalis Ants. Microbiol Resour Announc 2018; 7:MRA00871-18. [PMID: 30533809 PMCID: PMC6211366 DOI: 10.1128/mra.00871-18] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2018] [Accepted: 06/25/2018] [Indexed: 01/22/2023] Open
Abstract
For their food source, Trachymyrmex septentrionalis ants raise symbiotic fungus gardens that contain bacteria whose functions are poorly understood. Here, we report the genome sequences of eight bacteria isolated from these fungus gardens to better describe the ecology of these strains and their potential to produce secondary metabolites in this niche. For their food source, Trachymyrmex septentrionalis ants raise symbiotic fungus gardens that contain bacteria whose functions are poorly understood. Here, we report the genome sequences of eight bacteria isolated from these fungus gardens to better describe the ecology of these strains and their potential to produce secondary metabolites in this niche.
Collapse
|
50
|
Meta-Omics Tools in the World of Insect-Microorganism Interactions. BIOLOGY 2018; 7:biology7040050. [PMID: 30486337 PMCID: PMC6316257 DOI: 10.3390/biology7040050] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 10/25/2018] [Revised: 11/16/2018] [Accepted: 11/22/2018] [Indexed: 02/07/2023]
Abstract
Microorganisms are able to influence several aspects of insects’ life, and this statement is gaining increasing strength, as research demonstrates it daily. At the same time, new sequencing technologies are now available at a lower cost per base, and bioinformatic procedures are becoming more user-friendly. This is triggering a huge effort in studying the microbial diversity associated to insects, and especially to economically important insect pests. The importance of the microbiome has been widely acknowledged for a wide range of animals, and also for insects this topic is gaining considerable importance. In addition to bacterial-associates, the insect-associated fungal communities are also gaining attention, especially those including plant pathogens. The use of meta-omics tools is not restricted to the description of the microbial world, but it can be also used in bio-surveillance, food safety assessment, or even to bring novelties to the industry. This mini-review aims to give a wide overview of how meta-omics tools are fostering advances in research on insect-microorganism interactions.
Collapse
|