Draft Genome Sequence of Neisseria mucosa Strain HSUH001, Isolated from an Aggressive Periodontal Lesion

ABSTRACT We report the draft genome sequence (143 contigs, with a total length of 2,424,805 bp and an N50 value of 36,066 bp) of a bacterium isolated from an aggressive periodontal lesion in a patient. We assigned strain HSUH001 to Neisseria mucosa through a multilocus sequence analysis.

Multilocus Sequence Analysis and Copper Ion Resistance Detection of 60 Xanthomonas arboricola pv. juglandis Isolates from China

Walnut bacterial blight caused by Xanthomonas arboricola pv. juglandis (Xaj) has serious repercussions for walnut production around the world. Between 2015 and 2017, disease samples were collected from six counties (Danjiangkou, Baokang, Suizhou, Shennongjia, Zigui, and Xingshan) in Hubei province, China. Fifty-nine Xaj strains were identified by morphology and specific PCR primers from 206 isolates. The genetic diversity of 60 Xaj strains (59 from Hubei plus one from Beijing) was evaluated by Multilocus Sequence Analysis (MLST), and their resistance to copper ion (Cu2+) treatment was determined. A Neighbor Joining phylogenetic dendrogram was constructed based on four sequences of housekeeping genes (atpD-dnaK-glnA-gyrB). Two groups of strains were identified whose clustering was consistent with that of glnA. The minimal inhibitory concentration of copper ion on representative Xaj strain DW3F3 (the first genome sequenced Xaj from China) was 115 μg/ml. Setting the copper resistant threshold value to 125 μg/ml, 47 and 13 strains were considered sensitive and resistant to Cu2+, respectively. Furthermore, five strains showed Cu2+ resistance at 270 μg/ml. Compared to the copB from sensitive strains, the copB gene in resistant strains had a 15-bp insertion and eight scattered single nucleotide polymorphisms. Interestingly, the clustering based on MLSA was distinct between Xaj copper ion resistant and sensitive strains.

Phylogenetic and phenotypic characterization of Fusarium oxysporum f. sp. niveum isolates from Florida-grown watermelon

Fusarium wilt of watermelon (Citrullus lanatus) caused by Fusarium oxysporum f. sp. niveum (Fon), has become an increasing concern of farmers in the southeastern USA, especially in Florida. Management of this disease, most often through the use of resistant cultivars and crop rotation, requires an accurate understanding of an area’s pathogen population structure and phenotypic characteristics. This study improved the understanding of the state’s pathogen population by completing multilocus sequence analysis (MLSA) of two housekeeping genes (BT and TEF) and two loci (ITS and IGS), aggressiveness and race-determining bioassays on 72 isolates collected between 2011 and 2015 from major watermelon production areas in North, Central, and South Florida. Multilocus sequence analysis (MLSA) failed to group race 3 isolates into a single large clade; moreover, clade membership was not apparently correlated with aggressiveness (which varied both within and between clades), and only slightly with sampling location. The failure of multilocus sequence analysis using four highly conserved housekeeping genes and loci to clearly group and delineate known Fon races provides justification for future whole genome sequencing efforts whose more robust genomic comparisons will provide higher resolution of intra-species genetic distinctions. Consequently, these results suggest that identification of Fon isolates by race determination alone may fail to detect economically important phenotypic characteristics such as aggressiveness leading to inaccurate risk assessment.

Occurrence of Bacterial Spot in Illinois Tomato Fields and Characteristics of the Causal Agents

Bacterial spot, caused by Xanthomonas spp., is one of the most important diseases of tomato in Illinois. Field surveys were conducted during 2017–19 to assess occurrence of bacterial spot in commercial tomato fields. Severity of foliage and fruit infection was recorded, and symptomatic samples were collected from three-to-five cultivars in three different farms in each of northern, central, and southern regions of Illinois. Severity of symptomatic foliage ranged from 0% to 91% (average 36.7%) and incidence of symptomatic fruit ranges from 0% to 30% (average 10.8%). During the surveys, 266 Xanthomonas isolates were collected and identified as Xanthomonas gardneri and X. perforans using Xanthomonas-specific hrp primers. Eighty-six percent of the isolates from the northern region were identified as X. gardneri, whereas 73% of the isolates from southern region were identified as X. perforans. Isolates from the central region were identified as X. perforans and X. gardneri 53% and 47% of the time, respectively. Multilocus sequence analysis using six housekeeping genes (fusA, gap-1, gltA, gyrB, lepA, and lacF) revealed the endemic population of X. gardneri and X. perforans. In addition to Xanthomonas, nine non-Xanthomonas bacterial genera were isolated from the samples, with most of the isolates classified as Microbacterium, Pantoea, and Pseudomonas.