Conserved Microsynteny of<i>NPR1</i>with Genes Encoding a Signal Calmodulin-Binding Protein and a CK1-Class Protein Kinase in<i>Beta vulgaris</i>and Two Other Eudicots

Kuykendall, David; Shao, Jonathan; Murphy, Tammy

doi:10.1155/2008/391259

Cited by 5 publications

(8 citation statements)

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“…Coe1 , a DNA transposon within apparent LTRs and other retrotransposon-like features, was discovered on a sugarbeet genomic BAC carrying the NPR1 disease resistance-priming gene [ 7 – 9 ]. This recent discovery in Beta vulgaris of a unique 16.3 Kb CACTA En/Spm -like transposon named Coe1 [ 7 ] was followed by the finding of conserved microsynteny of NPR1 with another core plant gene whose predicted product has high similarity to a DNA-binding HSF protein [ 8 ]. About 70 Kb of repetitive DNA separates the HSF gene and NPR1 from another small core gene cluster with a CaMP gene specifying a signal peptide calmodulin-binding protein and a gene encoding a CK1-class protein kinase gene [ 8 ], greatly extending and disambiguating the results of the initial sequencing and partial in silico analysis of an NPR1 gene-carrying sugarbeet BAC [ 9 ].…”

Section: Introductionmentioning

confidence: 99%

“…This recent discovery in Beta vulgaris of a unique 16.3 Kb CACTA En/Spm -like transposon named Coe1 [ 7 ] was followed by the finding of conserved microsynteny of NPR1 with another core plant gene whose predicted product has high similarity to a DNA-binding HSF protein [ 8 ]. About 70 Kb of repetitive DNA separates the HSF gene and NPR1 from another small core gene cluster with a CaMP gene specifying a signal peptide calmodulin-binding protein and a gene encoding a CK1-class protein kinase gene [ 8 ], greatly extending and disambiguating the results of the initial sequencing and partial in silico analysis of an NPR1 gene-carrying sugarbeet BAC [ 9 ]. In summary, our laboratory has identified, sequenced, and annotated a bacterial artificial chromosome (BAC) carrying the NPR1 disease resistance priming gene of sugarbeet, Beta vulgaris L. [ 7 – 9 ].…”

Section: Introductionmentioning

confidence: 99%

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A Nest of LTR Retrotransposons Adjacent the Disease Resistance‐Priming Gene NPR1 in Beta vulgaris L. U.S. Hybrid H20

Kuykendall¹,

Shao²,

Trimmer³

2009

International Journal of Plant Genomics

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A nest of long terminal repeat (LTR) retrotransposons (RTRs), discovered by LTR_STRUC analysis, is near core genes encoding the NPR1 disease resistance-activating factor and a heat-shock-factor-(HSF-) like protein in sugarbeet hybrid US H20. SCHULTE, a 10 833 bp LTR retrotransposon, with 1372 bp LTRs that are 0.7% divergent, has two ORFs with unexpected introns but encoding a reverse transcriptase with rve and Rvt2 domains similar to Ty1/copia-type retrotransposons and a hypothetical protein. SCHULTE produced significant nucleotide BLAST alignments with repeat DNA elements from all four families of plants represented in the TIGR plant repeat database (PRD); the best nucleotide sequence alignment was to ToRTL1 in Lycopersicon esculentum. A second sugarbeet LTR retrotransposon, SCHMIDT, 11 565 bp in length, has 2561 bp LTRs that share 100% identity with each other and share 98-99% nucleotide sequence identity over 10% of their length with DRVs, a family of highly repetitive, relatively small DNA sequences that are widely dispersed over the sugarbeet genome. SCHMIDT encodes a complete gypsy-like polyprotein in a single ORF. Analysis using LTR_STRUC of an in silico deletion of both of the above two LTR retrotransposons found that SCHULTE and SCHMIDT had inserted within an older LTR retrotransposon, resulting in a nest that is only about 10 Kb upstream of NPR1 in sugarbeet hybrid US H20.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

A Nest of LTR Retrotransposons Adjacent the Disease Resistance‐Priming Gene NPR1 in Beta vulgaris L. U.S. Hybrid H20

Kuykendall¹,

Shao²,

Trimmer³

2009

International Journal of Plant Genomics

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“…parts of leaves base were grown on 5 % and 7 % (PEG 600) media, Showed hyper hydration signs, that is look like callous appearance. Researchers stated that water deficiency stress is a crucial factor for the initial phase of plant growth and development, which affects plant growth and elongation (Kusaka et al, 2005;Kuykendall et al, 2008;Jaleel et al, 2009;Anjum et al, 2011). Moreover, Moosavi et al (2017) reported that drought effects on dry weight of leaf, root, crown, total dry weight and root crop, Also drought stress effect on leaf temperature characters of different genotypes of sugar beet.…”

Section: -Morphological Changesmentioning

confidence: 99%

Expression of Alpha Amylase and Osmotin-Like Protein under Drought‏ Stress in Sugar Beet

Youssef

Ismail

El-Assal

et al. 2018

Journal of Agricultural Chemistry and Biotechnology

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Sugar beet is considered as an essential crop to produce sugar, and its common name in plant breeding is Beta vulgaris L. Production of sugar beet is regularly limited by environmental circumstances which result in reduction of photosynthesis rates, sucrose accumulation and effects root development. Therefore research is needed to understand plant response to drought stress at the genomic level, to improve sugar beet crop drought tolerance. Various research efforts aimed to identify water deficit inducible genes by determining gene expression under a stresses abiotic. Our study focused on using qRT-PCR for studying gene expression in sugar beet under in vitro drought stress conditions. Treated plants were grown for 30 days on micro-propagation media with 0%, 3%, 5% and 7% PEG. Followed by total RNA extraction from leaves which reverse transcribed into cDNA, that is used as matrix in qPCR reaction using SYBR Green. The glutamine synthetase housekeeping gene, was employed as endogenous control, while alpha amylase and osmotin-like protein were used as target genes. The relative expression quantification values for our genes of interest were measured by the 2 −∆∆CT method. Alpha amylase and osmotin-like protein genes under drought stress showed a significant up-regulation expression. Additionally, qRT-PCR protocol provides an accurate and efficient result in studying the potential of expression analysis for the candidate genes under water stress in sugar beet. Our study could help in identifying plant response to abiotic stress at the gene expression level.

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“…Also, an HSF gene adjacent to, just 2 Kb downstream from, NPR1 in sugarbeet and whose close microsynteny is conserved in four out of five eudicots examined, encodes a DNA-binding HSF protein similar to that specified by gene HSFA9 that controls early leaf morphogenesis in sunflower [4, 5]. …”

Section: Introductionmentioning

confidence: 99%

“…In our previous study, complete BAC sequence analysis identified two core plant genes, CaMP and CKI , tightly physically linked to the disease resistance controlling gene NPR1 and established a conservation of microsynteny between the NPR1 gene regions of sugarbeet and other eudicots [ 4 ]. Also, an HSF gene adjacent to, just 2 Kb downstream from, NPR1 in sugarbeet and whose close microsynteny is conserved in four out of five eudicots examined, encodes a DNA-binding HSF protein similar to that specified by gene HSFA9 that controls early leaf morphogenesis in sunflower [ 4 , 5 ].…”

Section: Introductionmentioning

confidence: 99%

Genes Encoding Callose Synthase and Phytochrome A Are Adjacent to a MAP3Kα-Like Gene in Beta vulgaris US H20

Kuykendall

Shao

2011

International Journal of Plant Genomics

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MAP3Kα, a gene that encodes a key conserved protein kinase, is responsible for initiating a rapid cascade of cellular events leading to localized cell death. Hypersensitive response, as it is termed, enables genetically resistant plants to limit microbial invasion under the right environmental conditions. Since knowledge of close physically linked genes is important for genome analysis and possibly for improving disease resistance, systematic DNA sequence analysis, gene annotation, and protein BLASTs were performed to identify and characterize genes in close physical proximity to a MAP3Kα-like gene in Beta vulgaris L. US H20. On the same 125 Kb BAC, callose synthase (BvCS) and phytochrome A (PhyA) genes were within 50 Kb of MAP3Kα. The close physical linkage of these genes may result from selection for coordinated responses to disease pressure. Bert, a new chromodomain-carrying gypsy-like LTR retrotransposon, resides within an intron of the BvCS gene, where it is transcribed from the opposing strand.

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Conserved Microsynteny ofNPR1with Genes Encoding a Signal Calmodulin-Binding Protein and a CK1-Class Protein Kinase inBeta vulgarisand Two Other Eudicots

Cited by 5 publications

References 40 publications

A Nest of LTR Retrotransposons Adjacent the Disease Resistance‐Priming Gene NPR1 in Beta vulgaris L. U.S. Hybrid H20

A Nest of LTR Retrotransposons Adjacent the Disease Resistance‐Priming Gene NPR1 in Beta vulgaris L. U.S. Hybrid H20

Expression of Alpha Amylase and Osmotin-Like Protein under Drought‏ Stress in Sugar Beet

Genes Encoding Callose Synthase and Phytochrome A Are Adjacent to a MAP3Kα-Like Gene in Beta vulgaris US H20

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