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genetic variability and potential recombination events in the hc-pro gene of sugarcane streak mosaic virus.sugarcane streak mosaic virus (scsmv), a member of the family potyviridae, is an important viral pathogen affecting sugarcane production in india. the variability in the nucleotide (nt) and amino acid (aa) sequences of helper component proteinase (hc-pro) of scsmv isolates from india was investigated and compared with those of previously published virus isolates from different asian countries. comparison of all of the sequenced virus isolates revealed a high level of diversity in the hc-pro gene ...201222481599
molecular characterization of indian sugarcane streak mosaic virus isolate.sugarcane streak mosaic virus (scsmv), a member of the genus poacevirus, family potyviridae, is an important viral pathogen affecting sugarcane cultivation in india. the complete nucleotide sequence of a scsmv isolate from india (scsmv-ind) was determined. the linear, assembled, single-stranded positive-sense rna genome of scsmv-ind was 9,786 nucleotides in length (excluding the poly (a) tail) and encoded a polyprotein of 3,131 amino acid residues. the genome of scsmv-ind shared high degree of s ...201323011777
molecular characterization of a new strain of sugarcane streak mosaic virus (scsmv).the complete nucleotide sequences of three sugarcane streak mosaic virus (scsmv) isolates found in sugarcane plants imported from japan (jp1, jp2) and indonesia (id) into china were determined. sequence analysis showed that, based on the whole genome sequence and the nucleotide sequences encoding the ten mature proteins, the three scsmv isolates shared identities of 81.62%-81.67% and 76.39%-85.93%, respectively, with a pakistan (pak) isolate of scsmv. phylogenetic analysis indicated that scsmv-j ...201121927898
duplex-immunocapture-rt-pcr for detection and discrimination of two distinct potyviruses naturally infecting sugarcane (saccharum spp. hybrid).a sensitive duplex-immunocapture-rt-pcr (d-ic-rt-pcr) technique was developed for detection and discrimination of taxonomically distinct sugarcane streak mosaic virus (scsmv) and sugarcane mosaic virus (scmv) that naturally infect sugarcane. d-ic-rt-pcr was performed using polyclonal antisera for capture of virions. oligo 5'-d(t)18(agc)-3' as a common reverse primer for both viruses and virus specific forward primers, 5'-aagtggttaaacgcctgtgg-3' and 5'-atgtc(ga)aagaa(ga)atgcgcttgc-3' were used fo ...201121365999
complete nucleotide sequence and taxonomy of sugarcane streak mosaic virus, member of a novel genus in the family potyviridae.the complete genomic sequence of a pakistani isolate of sugarcane streak mosaic virus (scsmv-pak) is determined to be 9782 nucleotides in length, excluding the 3' poly(a) tail, and it comprises a large open reading frame encoding a polyprotein of 3130 amino acid residues. the deduced polyprotein is likely to be cleaved at nine putative protease sites by three viral proteases to ten mature proteins. conserved motifs of orthologous proteins of other potyviruses are identified in corresponding posi ...201020162446
the complete genome sequence of triticum mosaic virus, a new wheat-infecting virus of the high plains.the genome of triticum mosaic virus (trimv), a recently discovered mite-transmitted wheat potyvirus, was sequenced, characterized, and compared to other members of the family potyviridae. trimv has a single mrna strand of 10,266 nucleotides with a predicted polyprotein consisting of 3,112 peptides. protein alignments of the coat protein demonstrate that trimv has 45.9% identity to sugarcane streak mosaic virus strain ap (scsmv-ap), but shares only 23.2% identity to wheat streak mosaic virus. alt ...200919649764
simultaneous detection and identification of four sugarcane viruses by one-step rt-pcr.sugarcane mosaic disease (smd) caused by the sugarcane mosaic virus (scmv), sorghum mosaic virus (srmv) and sugarcane streak mosaic virus (scsmv) and sugarcane yellow leaf disease (syld) caused by the sugarcane yellow leaf virus (scylv) are the two most prevalent and economically important viral diseases of sugarcane. in this study, a one-step quadruplex reverse transcription (rt)-pcr method that employed virus-specific primers was developed for the simultaneous detection and differentiation of ...200919646484
triticum mosaic virus: a distinct member of the family potyviridae with an unusually long leader sequence.the complete genome sequence of triticum mosaic virus (trimv), a member in the family potyviridae, has been determined to be 10,266 nucleotides (nt) excluding the 3' polyadenylated tail. the genome encodes a large polyprotein of 3,112 amino acids with the "hall-mark proteins" of potyviruses, including a small overlapping gene, pipo, in the p3 cistron. the genome of trimv has an unusually long 5' nontranslated region of 739 nt with 12 translation initiation codons and three small open reading fra ...200919594313
genetic diversity among viruses associated with sugarcane mosaic disease in tucumán, argentina.sugarcane leaves with mosaic symptoms were collected in 2006--07 in tucumán (argentina) and analyzed by reverse-transcriptase polymerase chain reaction (rt-pcr) restriction fragment length polymorphism (rflp) and sequencing of a fragment of the sugarcane mosaic virus (scmv) and sorghum mosaic virus (srmv) coat protein (cp) genes. scmv was detected in 96.6% of samples, with 41% showing the rflp profile consistent with strain e. the remaining samples produced eight different profiles that did not ...200919055433
viruses causing mosaic disease in sugarcane and their genetic diversity in southern china.a survey of cultivated hybrid sugarcane (saccharum inter-specific hybrid) and noble sugarcane (saccharum officinarum) in southern china for the presence of sugarcane mosaic virus (scmv), sorghum mosaic virus (srmv) and sugarcane streak mosaic virus (scsmv) was conducted by rt-pcr from the years 2003 to 2006. scmv and srmv, but not scsmv, were found. a high incidence of scmv and srmv coinfection was revealed in both hybrid and noble sugarcanes. all coinfected plants showed mosaic symptom, whereas ...200818438601
characterization and genetic diversity of sugarcane streak mosaic virus causing mosaic in sugarcane.sixty-three sugarcane leaf samples were collected from fifty-eight sugarcane varieties, evolved from eleven major sugarcane growing states in india, australia, south africa and usa. in rt-pcr, using gene specific primers for sugarcane streak mosaic virus (scsmv)-cp, 58 of 63 sugarcane samples were found positive to the virus infection and rest of the five samples were negative. partial cp gene sequences of 42 scsmv isolates including an isolate from aphid colony (melanaphis indosacchari) infeste ...200818427969
development of recombinant coat protein antibody based ic-rt-pcr for detection and discrimination of sugarcane streak mosaic virus isolates from southern india.sugarcane streak mosaic virus (scsmv), causes mosaic disease of sugarcane and is thought to belong to a new undescribed genus in the family potyviridae. the coat protein (cp) gene from the andhra pradesh (ap) isolate of scsmv (scsmv-ap) was cloned and expressed in escherichia coli. the recombinant coat protein was used to raise high quality antiserum. the cp antiserum was used to develop an immunocapture reverse transcription-polymerase chain reaction (ic-rt-pcr) based assay for the detection an ...200312756623
taxonomic position of sugarcane streak mosaic virus in the family potyviridae.acdna library was generated from purified rna of sugarcane streak mosaic virus--andhra pradesh (scsmv-ap). two overlapping clones covering 3160 nucleotides encoding partial ci, complete 6k2, vpg-nia and nib genes were sequenced. a comparison of this sequence along with the 3' terminal 1315 nucleotides of scsmv-ap determined earlier with the other members of the family potyviridae indicated that it had only 30% identity at the amino acid level for the partial polyprotein open reading frame (orf) ...200212376760
phylogenetic relationships, strain diversity and biogeography of tritimoviruses.north american and eurasian isolates of wheat streak mosaic virus (wsmv; genus tritimovirus) and oat necrotic mottle virus (onmv; genus rymovirus) were examined. nine wsmv isolates differentially infected oat, barley, inbred maize line sdp2 and sorghum line ks56. the wsmv isolates clustered into groups based on phylogenetic analyses of the capsid protein (cp) cistron and flanking regions. wsmv isolates from the united states (us) and turkey were closely related, suggesting recent movement betwee ...200211907340
identification and validation of sugarcane streak mosaic virus-encoded micrornas and their targets in sugarcane.plants have developed several defense mechanisms to cope with various pathogens (bacteria, fungi, virus, and phytoplasma). among these, rna interference (rnai)-mediated defense against viral infection was found to be a major innate immune response. as a counter attack strategy against the host defense, viruses produce suppressors of host rnai pathway. micrornas (mirnas) are an abundant class of short (~18-22 nucleotide) non-coding single-stranded rnas involved in rnai pathway leading to post-tra ...201424145912
molecular variability of sugarcane streak mosaic virus in china based on an analysis of the p1 and cp protein coding regions.sequences of the protein 1 (p1) and coat protein (cp) coding regions of 22 sugarcane streak mosaic virus (scsmv) isolates were determined. phylogenetic analysis showed that scsmv had at least three major lineages, and the lineages seemed to reflect geographical origin. the sudden expansions of the chinese and indian subpopulations were supported by calculations showing deviations from the neutral equilibrium model for the individual lineages with an overall lack of nucleotide diversity. our stud ...201424178307
molecular characterization of indian sugarcane streak mosaic virus isolates reveals recombination and negative selection in the p1 gene.sugarcane streak mosaic virus (scsmv), a member of the genus poacevirus is an important viral pathogen affecting sugarcane production in india. the p1 gene of ten indian isolates was sequenced and compared with previously reported scsmv isolates. comparative sequence analysis revealed a high level of diversity in the p1 gene (83-98% nucleotide sequence identity; 87-100% amino acid sequence identity), and the indian scsmv isolates were found to be the most variable (up to 9% diversity at the amin ...201425225126
genetic structure of populations of sugarcane streak mosaic virus in china: comparison with the populations in india.sugarcane streak mosaic virus (scsmv) causes mosaic and streak symptoms on sugarcane and sorghum crops, and has a broad host range. scsmv is a member of the genus poacevirus in the family potyviridae.ten scsmv isolates were collected from sugarcane plants showing mosaic and streaking in southern china from 2009-2011. sequence-based phylogenetic and population genetic analyses were conducted using four partial genomic sequences covering the full genomes. these analyses were used to estimate the s ...201626432446
genomic variability and molecular evolution of asian isolates of sugarcane streak mosaic virus.sugarcane streak mosaic virus (scsmv), an economically important causal agent of mosaic disease of sugarcane, is a member of the newly created genus poacevirus in the family potyviridae. in this study, we report the molecular characterization of three new scsmv isolates from china (yn-yz211 and hn-yz49) and myanmar (mya-formosa) and their genetic variation and phylogenetic relationship to scsmv isolates from asia and the type members of the family potyviridae. the complete genome of each of the ...201626973230
sugarcane elongin c is involved in infection by sugarcane mosaic disease pathogens.sugarcane (saccharum sp. hybrid) provides the main source of sugar for humans. sugarcane mosaic disease (smd) is a major threat to sugarcane production. currently, control of smd is mainly dependent on breeding resistant cultivars through hybridization, which is time-consuming. understanding the mechanism of viral infection may facilitate novel strategies to breed cultivars resistant to smd and to control the disease. in this study, a wide interaction was detected between the viral vpg protein a ...201526362180
assembly of recombinant coat protein of sugarcane streak mosaic virus into potyvirus-like particles.coat protein (cp) gene of sugarcane streak mosaic virus-ap isolate (scsmv-ap) was expressed in e. coli and recombinant cp (scsmv-ap rcp) was purified by linear sucrose density gradient centrifugation. observation of purified scsmv-ap rcp under electron microscope revealed the presence of potyvirus-like particles (pvlps). the assembled particles were shown to encapsidate cp gene transcripts by slot-blot hybridization.200819090352
molecular cloning, sequencing, and phylogenetic relationships of a new potyvirus: sugarcane streak mosaic virus, and a reevaluation of the classification of the potyviridae.the nucleic acid of a serologically distinct potyvirus, originally isolated out of sugar cane from pakistan, was reverse transcribed and the 3' terminal 2000 bp was pcr amplified, cloned, and sequenced. phylogenetic comparisons of viruses representing each genus of the potyviridae show that the pakistani isolate is most closely related to the rymoviruses wheat streak mosaic virus (wsmv) and brome streak mosaic virus. we therefore propose that this new virus species be named sugar cane streak mos ...199810051385
molecular characterization and interviral relationships of a flexuous filamentous virus causing mosaic disease of sugarcane (saccharum officinarum l.) in india.a virus isolate causing mosaic disease of commercial sugarcane was purified to homogeneity. electron microscopy revealed flexuous filamentous virus particles of ca 890 x 15 nm. the virus isolate reacted positively with heterologous antiserum to narcissus latent virus form uk, but failed to react with potyvirus group specific antiserum. n-terminal sequencing of the intact coat protein (cp) and the tryptic peptides indicated that the virus was probably a potyvirus but distinct from several reporte ...199910226614
a one-step real-time rt-pcr assay for the detection and quantitation of sugarcane streak mosaic virus.sugarcane mosaic disease is caused by the sugarcane streak mosaic virus (scsmv; genus poacevirus, family potyviridae) which is common in some asian countries. here, we established a protocol of a one-step real-time quantitative reverse transcription pcr (real-time qrt-pcr) using the taqman probe for the detection of scsmv in sugarcane. primers and probes were designed within the conserved region of the scsmv coat protein (cp) gene sequences. standard single-stranded rna (ssrna) generated by pcr- ...201526185758
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