TABLE 1.
Strain names, accession numbers, and genome characteristics of the soil isolates used in this study
| Straina | GenBank accession no. | No. of assembled reads |
Genome assembly size (bp) | Avg read length for Nanopore reads (bp) | Maximum read length for Nanopore reads (bp) | G+C content (%) | No. of CDSb | No. of rRNAs | No. of tRNAs | Completeness (%)c | Contamination (%)c | Complete BUSCO core genes (%)d | Topology | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Illumina | Nanopore | |||||||||||||
| Pedobacter sp. D749 | CP079218.1 | 3,337,001 | 8,681 | 5,843,246 | 10,467.7 | 84,368 | 38.4 | 4,895 | 15 | 54 | 98.09 | 0.19 | 98.5 | Circular |
| Rhodococcus globerulus D757 | CP079698.1 | 4,662,334 | 7,757 | 6,739,623 | 6,215.7 | 28,384 | 61.7 | 6,091 | 15 | 52 | 99.56 | 0.89 | 99 | Circular |
| Stenotrophomonas indicatrix D763 | CP079106.1 | 4,015,635 | 7,238 | 4,615,841 | 13,210.5 | 78,776 | 66.3 | 4,108 | 13 | 70 | 100 | 0.09 | 99.9 | Circular |
| Chryseobacterium sp. D764 | CP079219.1 | 3,464,854 | 7,638 | 4,921,682 | 21,343.3 | 92,855 | 36.2 | 4,343 | 18 | 85 | 100 | 0.25 | 97.4 | Circular |
a
Species delineation was performed using TYGS and autoMLST. For TYGS, the digital DNA-DNA hybridization (dDDH) threshold value was >70%.
b
CDS, coding DNA sequences.
c
Estimated using CheckM v.1.0.8.
d
Complete and single-copy benchmarking universal single-copy orthologs (BUSCOs).