Jurnal Biologi Tropis
Vol. 25 No. 4b (2025): Special Issue

Rhizosphere Microbiome of Arabica Coffee (Coffea arabica L.) Analyzed Using Oxford Nanopore 16S Sequencing

Nate, Selvia Pinte (Unknown)
Lubis, Syafrina Sari (Unknown)



Article Info

Publish Date
16 Dec 2025

Abstract

The rhizosphere microbiome plays a key role in nutrient cycling, soil structure, and plant health in Coffea arabica. This study analyzed the bacterial community composition of Arabica coffee rhizosphere soil from Tawar Miko, Aceh Tengah, using full-length 16S rRNA sequencing on the Oxford Nanopore platform. Taxonomic profiling revealed ten dominant phyla, including Pseudomonadota (43.77%), Acidobacteriota (18.17%), Planctomycetota (11.23%), Actinomycetota (5.81%), Myxococcota (4.08%), Bacteroidota (3.35%), Bacillota (2.86%), Thermodesulfobacteriota (2.69%), and Nitrospirota (2.26%). At the genus level, the most abundant taxa were Vicinamibacter (8.61%), Bradyrhizobium (4.14%), Brevitalea (4.03%), Pseudolabrys (2.64%), Nitrospira (2.26%), Acidibacter (1.97%), Streptomyces (1.76%), Sandaracinobacter (1.70%), and Paraburkholderia (1.57%). Species-level assessment indicated that Bradyrhizobium sp. was the most abundant, followed by Vicinamibacter sp., Brevitalea sp., Nitrospira sp., Paraburkholderia sp., Pseudolabrys sp., and Acidibacter sp., while low-abundance species (<3%) included Streptomyces sp. and Sandaracinobacter sp. These dominant species contribute to nitrogen fixation, nitrite oxidation, organic matter degradation, hydrocarbon metabolism, and natural biocontrol activity. The balanced distribution across taxa indicates a stable and functionally complementary microbial community that supports soil health and enhances the growth of Arabica coffee in highland agroecosystems.

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Journal Info

Abbrev

JBT

Publisher

Subject

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Immunology & microbiology

Description

Jurnal Biologi Tropis (ISSN Cetak 1411-9587 dan ISSN Online 2549-7863) diterbitkan mulai tahun 2000 dengan frekuensi 2 kali setahun oleh Program Studi Pendidikan Biologi PMIPA FKIP Universitas Mataram, berisi hasil penelitian dan ulasan Ilmiah dalam bidang Biologi ...