Draft Genomes of Five Fusarium oxysporum f. sp. niveum Strains Isolated from Infected Watermelon from Texas with Temporal and Spatial Differences

Abstract

Fusarium oxysporum f. sp. niveum (FON) is a soil-borne fungal pathogen of watermelon, which has significantly impacted production worldwide. In the U.S., watermelon growers can experience 30-100% yield loss from this soil pathogen (Amaradasa et al. 2018; Egel et al. 2005; Zhang et al. 2020). In this study, we present five draft genome sequences of FON-race 2 isolates collected from 4 different counties within Texas spanning more than 23 years (Fig. 1). The estimated genome sizes of the de novo assembled genomes were; W2 - 49 Mb, COM - 48 Mb, HAR - 49 Mb, STORM - 49 Mb and PRU - 48 Mb. These sizes were in par with the previously sequenced FON races 0 and 2 from Texas ranged from 49-54 Mb (van Dam et al. 2016). Gene prediction program AUGUSTUS (Stanke et al. 2006) predicted 13,554 genes in W2, 13,658 genes in COM, 13,678 genes in HAR, 13, 821 genes in STORM and 13,347 genes in PRU. The information from our 5 genome drafts contributes to the southeast genomic dataset of FON for comparative genomic analysis. Furthermore, the sequences are beneficial in the understanding of changes within the FON genome over time.

Core hyphosphere microbiota of Fusarium oxysporum f. sp. niveum

“…Further supporting results are from the ternary map visualizing a similar abundance of central core hyphosphere microbiota associated with the three isolates except for one dominant OTU strongly associated with a particular isolate. This pattern was demonstrated once more in the heatmap, as the most abundant OTUs were present within a particular FON2 isolates hyphosphere and was consistent throughout the isolate's samples regardless of repetition from re-culturing and differences in host fungi's genetic backgrounds [27].…”

“…We used 3 FON2 isolates (COM, HAR, and W2) from our earlier study [27] where we demonstrated genetic differences between these strains. Brie y, COM was isolated in 2020, W2 in 2018, and HAR in 2002.…”

Draft genome sequence of Neofusicoccum caryigenum associated with pecan leaf dieback

“…Bacterial contamination was identified using Barrnap program (version 0.9) ( 7 ) through prediction of 5S, 16S, and 23S rRNA bacterial genes. The bacterial contamination was output into a file and removed by using the filter sequences by ID ( 8 ) program within the Galaxy platform (v23.0) as described by Thomas et al ( 9 ). The cleaned reads were assembled using the de novo assembler, Megahit (version 1.2.9) ( 10 ), in Galaxy using Kmer sizes of 21, 29, 39, 59, 79, 99, 119, and 141 and the minimum length of contigs of 200.…”