Dataset Information

Genome-resolved carbon processing potential of tropical peat microbiomes from an oil palm plantation.

ABSTRACT: Tropical peatlands in South-East Asia are some of the most carbon-dense ecosystems in the world. Extensive repurposing of such peatlands for forestry and agriculture has resulted in substantial microbially-driven carbon emissions. However, we lack an understanding of the microorganisms and their metabolic pathways involved in carbon turnover. Here, we address this gap by reconstructing 764 sub-species-level genomes from peat microbiomes sampled from an oil palm plantation located on a peatland in Indonesia. The 764 genomes cluster into 333 microbial species (245 bacterial and 88 archaeal), of which, 47 are near-complete (completeness ≥90%, redundancy ≤5%, number of unique tRNAs ≥18) and 170 are substantially complete (completeness ≥70%, redundancy ≤10%). The capacity to respire amino acids, fatty acids, and polysaccharides was widespread in both bacterial and archaeal genomes. In contrast, the ability to sequester carbon was detected only in a few bacterial genomes. We expect our collection of reference genomes to help fill some of the existing knowledge gaps about microbial diversity and carbon metabolism in tropical peatlands.

SUBMITTER: Bandla A

PROVIDER: S-EPMC10250450 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature

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Genome-resolved carbon processing potential of tropical peat microbiomes from an oil palm plantation.

Bandla Aditya A Mukhopadhyay Sourav S Mishra Shailendra S Sudarshan Ashwin Sridhar AS Swarup Sanjay S

Scientific data 20230608 1

Tropical peatlands in South-East Asia are some of the most carbon-dense ecosystems in the world. Extensive repurposing of such peatlands for forestry and agriculture has resulted in substantial microbially-driven carbon emissions. However, we lack an understanding of the microorganisms and their metabolic pathways involved in carbon turnover. Here, we address this gap by reconstructing 764 sub-species-level genomes from peat microbiomes sampled from an oil palm plantation located on a peatland i ...[more]

PMID: 37291271

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Project description:Understanding host-parasitoid food webs, as well as the factors affecting species interactions, is important for developing pest management strategies in an agroecosystem. This research aimed to study how the long-term change in oil palm plantations, specifically the tree age, affect the structure of host-parasitoid food webs. The field research was conducted on an oil palm plantation located in Central Kalimantan and Jambi Province, Indonesia. In Central Kalimantan, we conducted observations of lepidopteran larvae and parasitoid wasps at different tree ages, ranging from 3 to 18 years old. For tree ages from 3 to 10 years, observations of host-parasitoid food webs were conducted by collecting the lepidopteran larvae using a hand-collection method in each oil palm tree within a hundred trees and they were later reared in the laboratory for observing the emerging parasitoids. The fogging method was applied for trees aged 12 to 18 years because the tree height was too high, and hand-collection was difficult to perform. To compare host-parasitoid food webs between different regions, we also conducted a hand-collection method in Jambi, but only for trees aged 3 years old. The food-web structure that was analyzed included the species number of lepidopteran larvae and parasitoid wasps, linkage density, and interaction diversity. We found 32 species of lepidopteran pests and 16 species of associated parasitoids in Central Kalimantan and 12 species of lepidopteran pests, and 11 species of parasitoids in Jambi. Based on the GLM analysis, tree age had a negative relationship with the species number of lepidopteran larvae and parasitoids as well as linkage density and interaction diversity. Different geographical regions showed different host-parasitoid food web structures, especially the species number of lepidopteran larvae and interaction diversity, which were higher in Central Kalimantan than in Jambi. However, some parasitoids can be found across different tree ages. For example, Fornicia sp (Hymenoptera: Braconidae) was recorded in all ages of oil palm sampled. Results of the GLM analysis showed that the abundance of Fornicia sp and its host (lepidopteran larvae abundance) were not affected by the tree age of the oil palm. In conclusion, the long-term change in oil palm plantations simplifies the structure of host-parasitoid food webs. This highlights the importance of long-term studies across geographical regions for a better understanding of the consequences that wide monoculture oil palm plantations have on biological control services.

Dataset Information

Genome-resolved carbon processing potential of tropical peat microbiomes from an oil palm plantation.

Publications

Genome-resolved carbon processing potential of tropical peat microbiomes from an oil palm plantation.

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