Comparative metagenomics analysis of the rhizosphere microbiota influence on Radix Angelica sinensis in different growth soil environments in China

Abstract

We studied the correlation between the soil microbial status and the crop yield or medicinal properties of Angelica s.. Soil from different counties of China were collected and used in this study. Readfq, SOAP denovo, MetaGeneMark, and DIAMOND Resistance Gene Identifier (RGI) software were used in the analysis. A total of 131,345 genes of high quality were obtained, with the number of genes in all samples ranging from 483-42,545 and the average length ranging from 354.88-523.47. The acidobacteria in the non-sterilized group were significantly increased by comparing with the sterilized group, while actinobacteria in the non-sterilized group were significantly reduced by comparing with the sterilized group. There was a strong correlation between the two groups of the planting group and the two groups of the non-planting group, while the correlation between the planting and non-planting group was very weak. There were significant differences in the soil microbial community structure between Min county and Yunnan, as well as significant differences between the dominant genera of Min county and Yunnan. In summary, our study showed that the soil microbial flora in different areas affected the characteristics of Angelica s. roots, while sterilized soil was not conducive to the growth of Angelica s.

Research progress in the application of stable isotope and mineral element analysis in tracing the geographical origin of Chinese medicinal materials

“…The correct discrimination rate of the predicted samples was 100%. Angelica sinensis is a perennial herb in China, the root system development and yield of Angelica sinensis produced in different regions were different, as were the content of trace elements and the medicinal effect (Yan et al, 2021). Yang et al (2020) analyzed the δ 13 C, δ 15 N values and 7 trace elements contents in angelica sinensis from Gansu, Sichuan and Yunnan.…”

The Influence of Seasons on the Composition of Microbial Communities and the Content of Lactic Acid during the Fermentation of Fen-Flavor Baijiu

“…The READFQ software was used for data filtering and quality control [19] and 30 bp was set as the window length. If the average quality value of the window was lower than 20, the end read sequence was cut from the window and the reads whose final read length were lower than 75% of the original read length were removed.…”

Modern microbial mats from the Chihuahuan Desert provide insights into ecological stability throughout Earth’s history

“…For each metagenome, reads were assembled into contigs to facilitate gene prediction. Forward and reverse paired reads, and individual forward and reverse with no pair, were assembled using MEGAHIT v1.1.1 (Li, Liu, et al, 2015) with minimum contig length of 500, k-min of 27 and k-step of 10 as suggested for highly-diverse metagenomes (Bandla et al, 2020;Yan et al, 2021). To control for sequencing depth bias, we used the minimum number of reads (1,288,875 reads) to sample the metagenomic datasets at random to normalize coverage for comparisons.…”