scholarly journals Phenotypic and Genetic Diversity of Xanthomonas perforans Populations from Tomato in North Carolina

2019 ◽  
Vol 109 (9) ◽  
pp. 1533-1543 ◽  
Author(s):  
Pragya Adhikari ◽  
Tika B. Adhikari ◽  
Sujan Timilsina ◽  
Inga Meadows ◽  
Jeffrey B. Jones ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
North Carolina ◽  
Management Practices ◽  
Citrate Synthase ◽  
Elongation Factor ◽  
Copper Tolerance ◽  
Bacterial Spot ◽  
Sequence Alignments ◽  
Phenotypic And Genetic Diversity

Bacterial spot caused by Xanthomonas spp. is one of the most devastating diseases of tomato in North Carolina (NC). In total, 290 strains of Xanthomonas spp. from tomato in NC collected over 2 years (2015 and 2016) were analyzed for phenotypic and genetic diversity. In vitro copper and streptomycin sensitivity assays revealed that >95% (n = 290) of the strains were copper tolerant in both years, whereas 25% (n = 127) and 46% (n = 163) were streptomycin tolerant in 2016 and 2015, respectively. Using BOX repetitive element PCR assay, fingerprint patterns showed four haplotypes (H1, H2, H3, and H4) among the strains analyzed. The multiplex real-time quantitative PCR on a subset of representative strains (n = 45) targeting the highly conserved hrcN gene identified Xanthomonas strains from tomato in NC that belonged to X. perforans. Race profiling of the representative strains (n = 45) on tomato and pepper differentials confirmed that ∼9 and 91% of strains are tomato races T3 and T4, respectively. Additionally, PCR assays and sequence alignments confirmed that the copL, copA, copB (copLAB copper tolerance gene cluster), and avrXv4 genes are present in the strains analyzed. Phylogenetic and comparative sequence analyses of six genomic regions (elongation factor G [fusA], glyceraldehyde-3-phosphate dehydrogenase A [gapA], citrate synthase [gltA], gyrase subunit B [gyrB], ABC transporter sugar permease [lacF], and GTP binding protein [lepA]) suggested that 13 and 74% of X. perforans strains from NC were genetically similar to races T3 and T4 from Florida, respectively. Our results provide insights that bacterial spot management practices in tomato should focus on deploying resistance genes to combat emerging pathogenic races of X. perforans and overcome the challenges currently posed by intense use of copper-based bactericides.

Copper tolerance in Xanthomonas arboricola pv. pruni in South Carolina peach orchards

Plant Disease ◽  
2021 ◽  
Author(s):  
Brodie Cox ◽  
Hehe Wang ◽  
Guido Schnabel
Keyword(s):  
United States ◽  
South Carolina ◽  
Management Practices ◽  
Southeastern United States ◽  
The United States ◽  
Copper Tolerance ◽  
Bacterial Spot ◽  
Organic Farm ◽  
Xanthomonas Arboricola ◽  
Tolerance To Copper

Bacterial spot of peach, caused by Xanthomonas arboricola pv. pruni (Xap), causes yield loss every year in southeastern United States peach orchards. Management is mainly driven by season-long applications of copper-based products, site location, and choice of cultivar. Although tolerance to copper has not been reported in Xap in the United States, adaptation of populations due to frequent use is a concern. We collected Xap from shoot cankers, leaves, and fruit of cv. O'Henry over two years from three conventional farms and one organic farm in South Carolina, one orchard per farm. The four farms had been using copper extensively for years to control bacterial spot. Xap was isolated from four canker types (bud canker, tip canker, non-concentric canker, and concentric canker) in early spring (‘bud break’), as well as from leaf and fruit tissues later in the season at phenological stages ‘pit hardening’ and ‘final swell’. Xap was most frequently isolated from cankers of the organic farm (24% of the cankers) and most isolates (45%) came from bud cankers. Xap isolates were assessed for sensitivity to copper using minimal glucose yeast agar and nutrient agar amended with 38 µg/ml or 51 µg/ml of Cu2+. Two phenotypes of copper-tolerance in Xap were discovered: low copper tolerance (LCT: growth up to 38 µg/ml Cu2+) and high copper tolerance (HCT: growth up to 51 µg/ml Cu2+). A total of 26 (23 LCT and 3 HCT) out of 165 isolates in 2018 and 32 (20 LCT and 12 HCT) out of 133 isolates in 2019 were tolerant to copper. Peach leaves on potted trees were sprayed with copper rates typically applied at ‘delayed dormancy’ (high rate; 2,397 µg/ml Cu2+), at ‘shuck split’ (medium rate; 599 µg/ml Cu2+), and during ‘summer cover sprays’ (low rate; 120 µg/ml Cu2+) and subsequently inoculated with sensitive, LCT and HCT strains. Results indicated that the low and medium rates of copper reduced bacterial spot incidence caused by the sensitive strain but not by the LCT and HCT strains. This study confirms existence of Xap tolerance to copper in commercial peach orchards in the southeastern United States and suggests its contribution to bacterial spot development under current management practices.

scholarly journals Genetic Diversity, Fungicide Sensitivity, and Host Resistance to Ceratocystis fimbriata Infecting Sweetpotato in North Carolina

Plant Disease ◽  
2017 ◽  
Vol 101 (6) ◽  
pp. 994-1001 ◽  
Author(s):  
A. C. Scruggs ◽  
T. Basaiah ◽  
M. L. Adams ◽  
L. M. Quesada-Ocampo
Keyword(s):  
Genetic Diversity ◽  
North Carolina ◽  
Control Strategies ◽  
Management Strategies ◽  
Pcr Amplification ◽  
The United States ◽  
Black Rot ◽  
Ceratocystis Fimbriata ◽  
Fungicide Application

Black rot of sweetpotato, caused by Ceratocystis fimbriata, has recently reemerged as a significant threat to sweetpotato production in North Carolina and other states across the United States. This disease has historically been controlled largely through cultural management strategies and, in some cases, fungicide application. The sudden and destructive reemergence of this disease in 2015 created the need for rapidly evaluating disease control strategies. Genetic diversity of current C. fimbriata isolates infecting sweetpotato in North Carolina was assessed using ITS, TEF, and MAT-2 sequences. All 50 tested isolates were confirmed to be of a single mating type, MAT-2, based on PCR amplification. Alignment of ITS, TEF, and MAT-2 sequences revealed all isolates were identical at each locus. Fourteen common sweetpotato cultivars and advanced breeding lines were screened for black rot resistance using two isolates. None of the cultivars were completely resistant to the disease and most were equally susceptible. ‘Stokes Purple’ and ‘Covington’ were the least susceptible, but significantly (P < 0.05) differed only from ‘Bellevue’, the most susceptible cultivar. Sensitivity of 50 C. fimbriata isolates to difenoconazole, fludioxonil, thiabendazole, dicloran, azoxystrobin, pyraclostrobin, fenamidone, and fluazinam was evaluated in vitro. Difenoconazole, thiabendazole, and fluazinam were most effective in reducing mycelia growth. Postharvest fungicide application on black rot-infected roots provided similar results. Low efficacy of dicloran, as well as a range of EC50 values among isolates, suggests potential resistance to this commonly applied fungicide. Results obtained in this study provide current and useful information so that improved recommendations can be made to reduce losses in sweetpotato to black rot.

scholarly journals Genetic Diversity of Toxigenic Fusarium Verticillioidesassociated with Maize Grains in India

2021 ◽  
Author(s):  
Vishwambar Navale ◽  
KoteswaraRao Vankudoth
Keyword(s):  
Genetic Diversity ◽  
Fusarium Verticillioides ◽  
Elongation Factor ◽  
Translation Elongation ◽  
H Index ◽  
Inter Simple Sequence Repeats ◽  
Wide Range ◽  
Elongation Factor 1 Alpha ◽  
Simple Sequence

Abstract Genetic diversity of Fusarium species associated with maize grains were analyzed from ten states of India. Fusarium verticillioides (88.52%), F. coffeatum (6.55%), F. foetens (3.27%) and F. euwallaceae (1.63%) were recovered from the maize samples. A phylogenetic analysis was performed based on the translation elongation factor 1 alpha (TEF1-α) gene sequence formed five evolutionary lineages (EL) that showed both inter- and intra-species variability. A In-vitro pathogenicity study confirms that among the 61 strains, 51% exhibited high to moderate virulence to the maize, and produced one or more mycotoxins. The genetic diversity of F. verticillioides were evaluated using Inter simple sequence repeats (ISSR) fingerprints. The ISSR fingerprints (AG)8C and (AG)8G shown 252 and 368 microsatellites sites, respectively, in the genome of F. verticillioides. The (AG)8C fingerprints differentiated the pathogenic and non-pathogenic clustering of F. verticillioides. However, Simpson’s (SID), and Shannon’s (H) index showed a wide range of diversity within the F. verticillioides. The pleomorphic nature of these strains role in host pathogen interactions and adoptive potential to develop disease to crop plants. Toxigenic potential of F. verticillioides was evaluated for the presence of FUM1and FUM13 genes involved in fumonisins B1 (FB1) biosynthesis, and further confirmed by liquid chromatography with tandem mass spectrometry (LC-MS/MS) showed 91% strains were FB1 producers. The current finding demonstrated that most F. vertcillioides strains showed a wide range of genetic diversity with varied toxigenic and pathogenic potentials. Thus, there is an urgent need to develop an effective resistant breeding program in maize, and further monitoring is necessary for the post-harvest losses of grains.

Identification of binding partners of CsaA - an archaeal chaperonic pro-tein of Picrophilus torridus

2020 ◽  
Vol 27 ◽  
Author(s):  
Neelja Singhal ◽  
Archana Sharma ◽  
Manisha Aswal ◽  
Nirpendra Singh ◽  
Manish Kumar ◽  
...  
Keyword(s):  
Protein Interactions ◽  
Citrate Synthase ◽  
Elongation Factor ◽  
Trna Synthetase ◽  
Strong Interactions ◽  
Beta Chain ◽  
Protein Protein Interactions ◽  
Uncharacterized Protein ◽  
Binding Partners ◽  
Picrophilus Torridus

Background:: CsaA is among the few chaperones which are present in both bacteria and archaea, but absent in eukaryotes. There are no reports on interactome analysis of CsaA from archaea, till date. Identification of binding partners of CsaA might be helpful in understanding CsaA-associated processes in Picrophilus torridus– an extreme thermoaci-dophilic euryarchaeon. Objectives:: The present study was conducted to identify the binding partners of CsaA of P. torridus (PtCsaA). Methods:: The binding partners of PtCsaA were isolated and identified using a pull down assay and liquid chromatography-mass spectrometry (LC-MS). Results:: The results revealed twelve potential binding partners of CsaA. These were thermosome subunits (Q6KZS2 and Q6L132), nascent polypeptide-associated complex protein (Q6L1N3), elongation factor 1-alpha (Q6L202), uncharacterized protein (Q6L0Y6), citrate synthase (Q6L0M8), asparaginyl-tRNA synthetase (Q6L0M5), succinyl-CoA synthetase beta chain (Q6L0B4), pyruvate ferredoxin oxidoreductase alpha and beta chain proteins (Q6KZA7 and Q6KZA6, respectively), malate dehydrogenase (Q6L0C3) and reversed fumarylacetoacetase (Q6KZ97). Functional categorization revealed that of these, six proteins were involved in energy metabolic pathways, three were archaeal chaperones, two were involved in trans-lation and one might be a transcription regulator. STRING-based analysis of the protein-protein interactions of the experi-mental interactome revealed strong interactions among them. Conclusion:: PtCsaA might be a multifaceted protein which besides translation might also play important role in metabolic processes of P. torridus. However, further experiments investigating the binding partners of CsaA in other archaea are re-quired for a better understanding of CsaA-associated processes in archaea.

scholarly journals Activation of mitochondrial TUFM ameliorates metabolic dysregulation through coordinating autophagy induction

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Dasol Kim ◽  
Hui-Yun Hwang ◽  
Eun Sun Ji ◽  
Jin Young Kim ◽  
Jong Shin Yoo ◽  
...  
Keyword(s):  
Metabolic Regulation ◽  
Elongation Factor ◽  
Dependent Manner ◽  
Diet Induced Obesity ◽  
Metabolic Dysregulation ◽  
Autophagy Induction ◽  
Transcription Factor Eb ◽  
Mitochondrial Elongation

AbstractDisorders of autophagy, a key regulator of cellular homeostasis, cause a number of human diseases. Due to the role of autophagy in metabolic dysregulation, there is a need to identify autophagy regulators as therapeutic targets. To address this need, we conducted an autophagy phenotype-based screen and identified the natural compound kaempferide (Kaem) as an autophagy enhancer. Kaem promoted autophagy through translocation of transcription factor EB (TFEB) without MTOR perturbation, suggesting it is safe for administration. Moreover, Kaem accelerated lipid droplet degradation in a lysosomal activity-dependent manner in vitro and ameliorated metabolic dysregulation in a diet-induced obesity mouse model. To elucidate the mechanism underlying Kaem’s biological activity, the target protein was identified via combined drug affinity responsive target stability and LC–MS/MS analyses. Kaem directly interacted with the mitochondrial elongation factor TUFM, and TUFM absence reversed Kaem-induced autophagy and lipid degradation. Kaem also induced mitochondrial reactive oxygen species (mtROS) to sequentially promote lysosomal Ca2+ efflux, TFEB translocation and autophagy induction, suggesting a role of TUFM in mtROS regulation. Collectively, these results demonstrate that Kaem is a potential therapeutic candidate/chemical tool for treating metabolic dysregulation and reveal a role for TUFM in autophagy for metabolic regulation with lipid overload.

scholarly journals Whole genome-based characterisation of antimicrobial resistance and genetic diversity in Campylobacter jejuni and Campylobacter coli from ruminants

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Medelin Ocejo ◽  
Beatriz Oporto ◽  
José Luis Lavín ◽  
Ana Hurtado
Keyword(s):  
Genetic Diversity ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Resistance Genes ◽  
Campylobacter Coli ◽  
Whole Genome ◽  
Northern Spain ◽  
Sequence Alignments ◽  
Phenotypic Data ◽  
Wide Range

AbstractCampylobacter, a leading cause of gastroenteritis in humans, asymptomatically colonises the intestinal tract of a wide range of animals.Although antimicrobial treatment is restricted to severe cases, the increase of antimicrobial resistance (AMR) is a concern. Considering the significant contribution of ruminants as reservoirs of resistant Campylobacter, Illumina whole-genome sequencing was used to characterise the mechanisms of AMR in Campylobacter jejuni and Campylobacter coli recovered from beef cattle, dairy cattle, and sheep in northern Spain. Genome analysis showed extensive genetic diversity that clearly separated both species. Resistance genotypes were identified by screening assembled sequences with BLASTn and ABRicate, and additional sequence alignments were performed to search for frameshift mutations and gene modifications. A high correlation was observed between phenotypic resistance to a given antimicrobial and the presence of the corresponding known resistance genes. Detailed sequence analysis allowed us to detect the recently described mosaic tet(O/M/O) gene in one C. coli, describe possible new alleles of blaOXA-61-like genes, and decipher the genetic context of aminoglycoside resistance genes, as well as the plasmid/chromosomal location of the different AMR genes and their implication for resistance spread. Updated resistance gene databases and detailed analysis of the matched open reading frames are needed to avoid errors when using WGS-based analysis pipelines for AMR detection in the absence of phenotypic data.

scholarly journals Characterization of Alternaria Species Associated with Heart Rot of Pomegranate Fruit

2021 ◽  
Vol 7 (3) ◽  
pp. 172
Author(s):  
Francesco Aloi ◽  
Mario Riolo ◽  
Simona Marianna Sanzani ◽  
Annamaria Mincuzzi ◽  
Antonio Ippolito ◽  
...  
Keyword(s):  
Elongation Factor ◽  
Monomethyl Ether ◽  
Alternariol Monomethyl Ether ◽  
Translation Elongation ◽  
Microscopic Features ◽  
Alternaria Species ◽  
Rot Disease ◽  
Multigene Phylogenetic Analysis ◽  
Pomegranate Fruit

This study was aimed at identifying Alternaria species associated with heart rot disease of pomegranate fruit in southern Italy and characterizing their mycotoxigenic profile. A total of 42 Alternaria isolates were characterized. They were obtained from pomegranate fruits with symptoms of heart rot sampled in Apulia and Sicily and grouped into six distinct morphotypes based on macro- and microscopic features. According to multigene phylogenetic analysis, including internal transcribed spacer (ITS), translation elongation factor 1-α (EF-1α), glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and a SCAR marker (OPA10-2), 38 isolates of morphotypes 1 to 5 were identified as Alternaria alternata, while isolates of morphotype 6, all from Sicily, clustered within the Alternaria arborescens species complex. In particular, isolates of morphotype 1, the most numerous, clustered with the ex-type isolate of A. alternata, proving to belong to A. alternata. No difference in pathogenicity on pomegranate fruits was found between isolates of A. alternata and A. arborescens and among A. alternata isolates of different morphotypes. The toxigenic profile of isolates varied greatly: in vitro, all 42 isolates produced tenuazonic acid and most of them other mycotoxins, including alternariol, alternariol monomethyl ether, altenuene and tentoxin.

scholarly journals EEF1A2 interacts with HSP90AB1 to promote lung adenocarcinoma metastasis via enhancing TGF-β/SMAD signalling

2021 ◽  
Author(s):  
Liqing Jia ◽  
Xiaolu Ge ◽  
Chao Du ◽  
Linna Chen ◽  
Yanhong Zhou ◽  
...  
Keyword(s):  
Lung Adenocarcinoma ◽  
Protein Interactions ◽  
Elongation Factor ◽  
Protein Translation ◽  
Protein Protein Interactions ◽  
Promising Target ◽  
Tgfβ Receptor ◽  
Mesenchymal Transformation

Abstract Background Eukaryotic protein translation elongation factor 1α2 (EEF1A2) is an oncogene that promotes the progression of breast and pancreatic cancer. In this study, we aimed to elucidate the oncogenic function of EEF1A2 in the metastasis of lung adenocarcinoma (LUAD). Methods Immunohistochemistry and western blot were used to study EEF1A2 expression levels in LUAD tissues and cells, respectively. The role of EEF1A2 in LUAD progression were investigated in vitro and in vivo. We identified potential EEF1A2-binding proteins by liquid chromatography-electrospray mass spectrometry (LC-MS)/MS. Protein–protein interactions were determined by immunofluorescence and co-immunoprecipitation (Co-IP). Results In this study, we report that EEF1A2 mediates the epithelial–mesenchymal transformation (EMT), to promote the metastasis of LUAD cells in vitro and in vivo. Moreover, EEF1A2 interacts with HSP90AB1 to increase TGFβ Receptor (TβR)-I, and TβRII expression, followed by enhanced SMAD3 and pSMAD3 expression and nuclear localisation, which promotes the EMT of LUAD cells. Overexpression of EEF1A2 in cancer tissues is associated with poor prognosis and short survival of patients with LUAD. Conclusions These findings underscore the molecular functions of EEF1A2 in LUAD metastasis and indicate that EEF1A2 represents a promising target in the treatment of aggressive LUAD.

Boscalid Insensitivity Documented in Didymella bryoniae Isolated from Watermelon in Florida and North Carolina

2012 ◽  
Vol 13 (1) ◽  
pp. 42
Author(s):  
Katherine L. Stevenson ◽  
Anthony P. Keinath ◽  
Anna Thomas ◽  
David B. Langston ◽  
Pamela D. Roberts ◽  
...  
Keyword(s):  
North Carolina ◽  
South Carolina ◽  
High Frequency ◽  
In Vitro Assays ◽  
Didymella Bryoniae ◽  
Triazole Fungicides ◽  
Stem Blight ◽  
Gummy Stem Blight ◽  
Commercial Mixture

The fungicide Pristine, a commercial mixture of pyraclostrobin and boscalid, has been used widely on watermelon and other cucurbits to control gummy stem blight, caused by the fungus Didymella bryoniae. Since 2007, isolates of D. bryoniae insensitive to boscalid have been found in Georgia, Indiana, and South Carolina. Most isolates of D. bryoniae obtained in 2009 and 2010 from diseased watermelon leaves collected in several counties in Florida and North Carolina were found to be insensitive to boscalid using in vitro assays. Gummy stem blight would not be effectively managed with Pristine in any of the counties where samples were collected due to the high frequency of insensitivity to boscalid. Fortunately growers can instead use several triazole fungicides registered for use on cucurbits since 2009. Accepted for publication 30 March 2012. Published 18 May 2012.

scholarly journals Identification, Expression, and Functions of the Somatostatin Gene Family in Spotted Scat (Scatophagus argus)

Genes ◽  
2020 ◽  
Vol 11 (2) ◽  
pp. 194
Author(s):  
Peizhe Feng ◽  
Changxu Tian ◽  
Xinghua Lin ◽  
Dongneng Jiang ◽  
Hongjuan Shi ◽  
...  
Keyword(s):  
Gene Family ◽  
Growth Regulation ◽  
Expression Patterns ◽  
Open Reading Frames ◽  
Pcr Analysis ◽  
Sequence Alignments ◽  
Scatophagus Argus ◽  
Gene Structure And Expression ◽  
Liver Fragments

Somatostatins (SSTs) are a family of proteins consisting of structurally diverse polypeptides that play important roles in the growth regulation in vertebrates. In the present study, four somatostatin genes (SST1, SST3, SST5, and SST6) were identified and characterized in the spotted scat (Scatophagus argus). The open reading frames (ORFs) of SST1, SST3, SST5, and SST6 cDNA consist of 372, 384, 321, and 333 bp, respectively, and encode proteins of 123, 127, 106, and 110 amino acids, respectively. Amino acid sequence alignments indicated that all SST genes contained conserved somatostatin signature motifs. Real-time PCR analysis showed that the SST genes were expressed in a tissue specific manner. When liver fragments were cultured in vitro with synthetic peptides (SST1, SST2, or SST6 at 1 μM or 10 μM) for 3 h or 6 h, the expression of insulin-like growth factor 1 and 2 (Igf-1 and Igf-2) in the liver decreased significantly. Treatment with SST5 had no significant effect on Igf-1 and Igf-2 gene expression. This study provides an enhanced understanding of the gene structure and expression patterns of the SST gene family in S. argus. Furthermore, this study provides a foundation for future exploration into the role of SST genes in growth and development.

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