Natalia Naumova^1,3*, Kumushbek Mambetov², Sovetbek Mamytkanov², Musakun Akhmatbekov², Olga Baturina³, Gulnur Dzhainakova¹, Olga Rusalimova¹, Aybek Sydykov², Pavel Barsukov¹, Marsel Kabilov³*

¹Institute of Soil Science and Agrochemistry, Siberian Branch of the Russian Academy of Sciences, Lavrentieva 8/2, Novosibirsk 630090, Russia

²Kyrgyz National Agrarian University named after K.I. Skryabin, Mederova Str., 68, Bishkek, Kyrgyz Republic

³Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, Lavrentieva 8, Novosibirsk 630090, Russia

 

*Corresponding author’s email: nnaumova@mail.ru; kabilov@niboch.nsc.ru

Received: 15 November 2025 / Revised: 11 February 2026 / Accepted: 08 March 2026 / Published Online: 18 March 2026

 

Abstract

 

Crop rotation, one of the most fundamental agronomic practices, has been widely used to avoid drastically compromising soil quality. From the longest in Central Asia multicrop rotation experiment we collected Calcisol samples with the aim to assess bacteriobiome structure and diversity using 16S rRNA gene metabarcoding; in this pilot study we used the plots cropped for winter wheat under different fertilization treatments (no fertilizers, NPK and NPK+manure) and collected soil samples three months after wheat harvest to allow the effects of soil disturbance and post-harvest phytomass residues input in soil to subside. In this first survey all major dominant phyla, namely Pseudomonadota, Acidobacteriota, Actinomycetota, Bacillota and Bacteioidota), together accounted for 85%, each having the same abundance under different fertilization. Overall, the long-term fertilization under multicrop rotation was not found to have a notable effect on soil bacteriobiome as only minor or rare taxa had changes in their abundance that were very small in size and hence hardly ecologically and agronomically significant. Soil bacteriobiome α-biodiversity indices were not affected by fertilization as well: the repetitive management practices might have increased the homogeneity of ecological niches for bacteria, thus equalizing biodiversity. Such bacterial genera as Sphingomonas, Stenotrophobacter and Pseudarthrobacter, as the most responsive to changes in soil environment under different treatments and being the drivers of β-biodiversity, warrant further research attention as related to the arable Calcisols functioning.

 

Keywords: 16S rRNA genes, Illumina Miseq, Metabarcoding, Crop rotation, Calcisol

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