The plant organs and rhizosphere determine the common bean mycobiome

Abstract

The plant microbiota diversity is often underestimated when approaches developed mainly for the identification of cultivable microorganisms are used. High-throughput sequencing allows a deeper understanding of the microbial diversity associated with plants. The amplification of ITS1 was used to analyze fungal diversity in several plant organs and rhizosphere of three common bean (Phaseolus vulgaris) varieties grown in a greenhouse. The fungal diversity diverged between those plant organs and the rhizosphere, with the highest found in the rhizosphere and the lowest in the stem. In each organ different numbers of genus, OTUs were identified, in a total of 283 OTUs evenly distributed among the varieties. In the co-occurrence network, a larger number of positive interactions were found in the organs of the aerial part in all varieties. We observed that the diversity of the endophytic microbiota differed more between plant organs than between common bean varieties. Our results show that the diversity of endophytic fungi can be efficiently accessed with the sequencing of ITS amplicons and that this diversity may vary among distinct plant organs and the rhizosphere of a single plant variety.

Diversity of endophytic fungal community in Huperzia serrata from different ecological areas and their correlation with Hup A content

“…In previous reports, the endophytic fungi in leaves of the medicinal plant Mansoa alliacea were more richness than those of in stems [25]. Similar results have also been reported by other reports [23,24,[26][27][28].…”

Characteristics of the Fungal Communities and Co-occurrence Networks in Hazelnut Tree Root Endospheres and Rhizosphere Soil

“…This may be because root exudates, mucus produced by the root cap and detached root cells provide suitable niches for the microbial communities around roots ( Buée et al, 2009 ). Ascomycota and Basidiomycota were the dominant fungal phyla in the root endospheres and rhizosphere soil, which was consistent with previous reports ( Ma et al, 2013 ; da Silva et al, 2020 ; Hou et al, 2020 ). Ascomycota is the most abundant phylum in the rhizosphere community ( Qian et al, 2019 ; Gargouri et al, 2021 ), the dominant phylum in the soil of larch plantation, and the main decomposer in many ecosystems ( Wang et al, 2013 , 2016 ; Zhou et al, 2016 ).…”

“…Endophytic microorganisms can colonize plant species without causing any diseases ( Petrini, 1991 ). Previous studies have explored the community composition of rhizosphere microorganisms and root endophytes in Mussaenda kwangtungensis , Cacti, bean, and poplar, which provided a way to understand the relationship between soil and plants ( Fonseca-García et al, 2016 ; Beckers et al, 2017 ; Qian et al, 2019 ; da Silva et al, 2020 ). Exploring the relationship between plants and the microorganisms in their environment can increase the understanding and utilization of these microorganisms, which is helpful to improve the productivity and economic value of plants ( Waller et al, 2005 ).…”

Baseline Data of the Fungal Phytobiome of Three Sorghum (Sorghum bicolor) Cultivars in South Africa using Targeted Environmental Sequencing

“…The selection of fungal communities at the rootrhizosphere-soil interface due to the release of exudates [39,40] have been observed for sorghum cultivars [13], but this needs to be studied in more detail in the South African context. The extent of specialization and diversification in different plant tissues that has been reported from other plants [41,42] has been hinted at based on the results of the study. Plant genotype is an important factor in structuring the diversity and selection of microbial communities [10,43], and has been shown in sorghum [13,15] and possibly indicated in this study.…”