scholarly journals First Report of Barley yellow dwarf virus-PAS in Wheat and Barley Grown in the Czech Republic

Plant Disease ◽  
2008 ◽  
Vol 92 (11) ◽  
pp. 1587-1587 ◽  
Author(s):  
J. K. Kundu
Keyword(s):  
Czech Republic ◽  
Amino Acid ◽  
Coat Protein ◽  
Coat Protein Gene ◽  
Protein Gene ◽  
Yellow Dwarf ◽  
Cereal Crops ◽  
The Czech Republic ◽  
Barley Yellow Dwarf ◽  
Yellow Dwarf Virus

Barley yellow dwarf disease, an important, ubiquitous virus disease of cereal crops worldwide, is caused by a group of related single-stranded RNA viruses assigned to luteovirus (Barley yellow dwarf virus (BYDV) spp. PAV, PAS, MAV, and GAV) or polerovirus (Cereal yellow dwarf virus-RPV) genera or unassigned to a genera (BYDV-SGV, BYDV-RMV, and BYDV-GPV) in the family Luteoviridae (2). Incidence of BYDV in cereal crops (e.g., barley, wheat, and oats) was high and reached epidemic levels in recent years in many regions of the Czech Republic. Previously, only PAV isolates have been identified here on the basis of serological detection (4), although antibodies to differentiate between PAV, PAS, and MAV are not widely available. Field samples of cereal crops were routinely tested in 2006 and 2007 and BYDVs were detected by ELISA. One-step-reverse transcription (RT)-PCR (Qiagen, Hilden, Germany) was adapted for BYDV detection using primer pairs BYcpF (5′-CCACTAGAGAGGTGGTGAATG-3′) and BYcpR (5′-CCGGTGTTGAGGAGTCTACC-3′) designed from conserved sequences identified by aligning multiple BYDV sequences available in public databases. These primers amplify a 641-bp fragment spanning nucleotides 2839–3479 from PAV (GenBank Accession No. EF043235) or PAS (GenBank Accession No. NC_002160) that includes a region of the coat protein gene and the intergenic region. RT-PCR amplicons were generated from two field isolates, PS-RuJK (spring wheat isolate, cv. Granny, collected in July 2007 from experimental plots at the CRI in Prague) and JE-120JK (winter barley isolate, cv. Merlot, collected in January 2008 from a barley field in Rychnov), both of which induced severe BYD symptoms. Amplicons were sequenced in both directions in a CEQ2000XL sequencer (Beckman Coulter, Fullerton, CA). The partial coat protein gene sequence of 483 nt of PS-RuJK and JE-120JK was analyzed and compared with available sequences of 26 PAV, 17 PAS, and 13 MAV isolates by MEGA4 (3). PS-RuJK (GenBank Accession No. EU863652) nucleotide and amino acid sequence identities ranged from 96.3 to 99.2% and 93.7 to 98.7%, respectively, for available PAS isolates, and 89.9 to 90.5% and 85.5 to 86.9%, respectively, for available PAV isolates, and 78.3 to 79.5% and 70.0 to 72.5%, respectively, for available MAV isolates. Similarly, nucleotide and amino acid sequence identities JE-120JK (GenBank Accession No. EU863653) ranged from 95.2 to 98.6% and 90.6 to 96.9%, respectively, for PAS isolates, 88.8 to 90.1% and 83.1 to 84.4%, respectively, for PAV isolates, and 77.6 to 78.7% and 67.5 to 70.0%, respectively, for MAV isolates. Also, both of these isolates have the conserved amino acid motif “SIPGS” that is usually present in a variable region of the coat protein gene on the surface of virion (1) at position 52 to 56 of amino acid sequences of all published PAS-like isolates, including Vd29:AY167109, FH1:AJ223588, MA9516:AJ007926, FL2:AJ223586, ASL-1:AJ810418, and WS6603:DQ285680, contrary to “PVFRP” or “LISGP” motif in PAV or MAV, respectively. Therefore, the sequence data clearly confirm that these two isolates belong to the PAS species. To our knowledge, this is the first record of PAS detected in the Czech Republic. References: (1) C. A. Chay et al. Phytopathology 86:370, 1996. (2) C. J. D'Arcy and L. L. Domier. Page 891 in: Virus Taxonomy-8th Report of the ICTV. C. M. Fauquet et al., eds. Springer-Verlag, NY, 2005. (3) K. Tamura et al. Mol. Biol. Evol. 24:1596, 2007. (4) J. Vacke. Page 100 in: Sbornik Referatu z Odborneho Seminare, Aktualni Problemy Ochrany Polnich Plodin. Praha, 1991.

Sequence and identification of the barley yellow dwarf virus coat protein gene

Virology ◽  
1988 ◽  
Vol 165 (1) ◽  
pp. 306-309 ◽  
Author(s):  
W.A. Miller ◽  
P.M. Waterhouse ◽  
A.A. Kortt ◽  
W.L. Gerlach
Keyword(s):  
Coat Protein ◽  
Coat Protein Gene ◽  
Protein Gene ◽  
Barley Yellow Dwarf Virus ◽  
Yellow Dwarf ◽  
Dwarf Virus ◽  
Barley Yellow Dwarf ◽  
Virus Coat Protein ◽  
Yellow Dwarf Virus ◽  
Virus Coat

scholarly journals First Report of Barley yellow dwarf virus-MAV in Oat, Wheat, and Barley Grown in the Czech Republic

Plant Disease ◽  
2009 ◽  
Vol 93 (9) ◽  
pp. 964-964 ◽  
Author(s):  
J. K. Kundu
Keyword(s):  
Czech Republic ◽  
Barley Yellow Dwarf Virus ◽  
Virus Disease ◽  
Yellow Dwarf ◽  
Dwarf Virus ◽  
Cereal Crops ◽  
Rt Pcr ◽  
The Czech Republic ◽  
Barley Yellow Dwarf ◽  
Yellow Dwarf Virus

Barley yellow dwarf disease, a ubiquitous virus disease of cereal crops worldwide, is caused by a group of related, single-stranded RNA viruses assigned to Luteovirus (Barley yellow dwarf virus [BYDV] spp. PAV, PAS, MAV, and GAV) or Polerovirus (Cereal yellow dwarf virus-RPV) genera or unassigned to a genera (BYDV-SGV, BYDV-RMV, and BYDV-GPV) in the family Luteoviridae (1). Incidence of BYDV in cereal crops (e.g., barley, wheat, and oats) was high, and in recent years, reached epidemic levels in many regions of the Czech Republic. BYDV-PAV and BYDV-PAS have been identified in Czech cereal crops (2,4). Surveys of the incidence of BYDV were carried out using ELISA (SEDIAG SAS, Longvic, France) and one-step reverse transcription (RT)-PCR (Qiagen, Hilden, Germany) (2) during 2007 and 2008. Samples (125) were collected from different fields around the Czech Republic and 96 were BYDV positive. Three of the field isolates, CZ-6815, CZ-1561, and CZ-10844, from oat (Avena sativa; cv. Auron), winter wheat (Triticum aestivum; cv. Apache), and winter barley (Hordeum vulgare; cv. Merlot), respectively, were identified as BYDV-MAV by sequencing of the RT-PCR product (641-bp fragment) used to identify BYDV, which spanned 2839–3479 of the BYDV genome (GenBank Accession Nos. EF043235 and NC_002160) (2). The partial coat protein gene sequence of 483 nt was compared with the available sequences of 12 BYDV-PAV isolates (PAV-JP, PAV-NY, PAV-ILL, PAV-AUS, PAV-WG2, PAV-whG4y3, PAV-on21-4, Tahoe1, CA-PAV, HB3, FH3, and MA9501); nine BYDV-PAS isolates (PAS-129, PAS-64, WS6603, WG13, PAS-Tcb4-1, PASwaw5-9, FL2, PAS-Vd29, and PAS-MA9516); and six BYDV-MAV isolates (MAV-CA, MAV-PS1X1, MAV-Alameds268, LMB2a, SI-o4, and MAV-CN) by MEGA4 (3). Nucleotide and amino acid sequence identities for the three isolates ranged from 92.9 to 99.4% and 88.0 to 95.8%, respectively, for available BYDV-MAV isolates; 76.8 to 78.2% and 62.7 to 67.6%, respectively, for available BYDV-PAS isolates; and 77.6 to 79.3% and 65.5 to 70.4%, respectively, for available PAV isolates. The sequence data indicates that these isolates (CZ-6815, CZ-1561, and CZ10844; GenBank Accession Nos. FJ645747, FJ645758, and FJ645746, respectively) are BYDV-MAV. To my knowledge, this is the first record of BYDV-MAV in the Czech Republic. References: (1) C. J. D'Arcy and L. L. Domier. Page 891 in: Virus Taxonomy-8th Report of the ICTV. C. M. Fauquet et al., eds. Springer-Verlag, NY, 2005. (2) J. K. Kundu. Plant Dis. 92:1587, 2008. (3) K. Tamura et al. Mol. Biol. Evol. 24:1596, 2007. (4) J. Vacke. Page 100 in: Sbornik Referatu z Odborneho Seminare, Aktualni Problemy Ochrany Polnich Plodin, Praha, 1991.

scholarly journals First Report of Onion yellow dwarf virus, Garlic common latent virus and Shallot latent virus on Garlic in Poland

Plant Disease ◽  
2014 ◽  
Vol 98 (6) ◽  
pp. 858-858 ◽  
Author(s):  
M. Chodorska ◽  
E. Paduch-Cichal ◽  
E. Kalinowska ◽  
M. S. Szyndel
Keyword(s):  
Coat Protein ◽  
Coat Protein Gene ◽  
Protein Gene ◽  
Latent Virus ◽  
Yellow Dwarf ◽  
Onion Yellow Dwarf Virus ◽  
Total Rna ◽  
Garlic Common Latent Virus ◽  
Shallot Latent Virus ◽  
Yellow Dwarf Virus

Garlic (Allium sativum L.) is vegetatively propagated and can be affected by a virus complex (1) consisting of two potyviruses, Onion yellow dwarf virus (OYDV) and Leek yellow stripe virus (LYSV), and two carlaviruses, Garlic common latent virus (GCLV) and Shallot latent virus (SLV) (2). OYDV, GCLV, and SLV are economically important viral pathogens of bulb garlic crops in many garlic-growing areas of the world. A general mosaic and yellowing of leaves of four garlic cultivars (Blanko, Harnaś, Jarus, and Mega) was observed in 11 garlic-production fields in the Lodz, Mazowieckie, Małopolska, and Pomorskie regions of Poland in July 2012. ELISA was carried out with extracts from 29 collected garlic leaf samples to detect OYDV, GCLV, and SLV using commercial antiserum (DSMZ, Braunschweig, Germany). Results indicated that 6 samples (20.7%) were infected with OYDV, 25 samples (86.2%) were infected with GCLV, and 23 samples (79.3%) were infected with SLV. The presence of these viruses in garlic leaf samples was confirmed by reverse transcription (RT)-PCR using total RNA extracted using the Spectrum Plant Total RNA kit (Sigma-Aldrich, Munich, Germany) and primers, designed in this study, specific to the whole coat protein gene of OYDV (OYDVF 5′-TAGGGTTGGATTATGATTTCTCGA-3′ and OYDVR 5′-TAGTGGTACACCACATTTCGT-3′), GCLV (GCLVF 5′-TTATAGGGACGGCACAAAATCAATCA-3′ and GCLVR 5′-AATAGCACTCCTAGAACAACCATT-3′) and SLV (SLVF 5′-AATYATTTACAATCGTCCAGCTA-3′ and SLVR 5′-ATAATATCAATCAAATMCACACAATT-3′). Amplicons of the expected size were obtained for each virus. The amplified products were purified and sequenced in both directions. Sequence information of the CP genes of 9 OYDV, 12 GCLV, and 7 SLV isolates has been submitted to NCBI-GenBank with accession numbers KF862683 to KF862710. Sequence analysis showed that the coat protein gene of OYDV shared 86% identity with the coat protein gene of OYDV isolate MS/SW1 from Australia (GenBank Accession No. HQ258894). Comparison of the coat protein gene sequences of Polish GCLV isolates with those available in GenBank showed 85 to 91% sequence identities. Multiple sequence alignment revealed 84% nucleotide identity between the Polish isolate of SLV and an SLV isolate from Chinese garlic (AF314147) formerly referred to as Garlic latent virus (3). To the best of our knowledge, this is the first report of OYDV, GCLV, and SLV in garlic plants in Poland. The accurate identification of viruses present in garlic plants will help to use the appropriate strategies to reduce viral incidence in garlic-growing areas. References: (1) J. Chen et al. Arch Virol 146:1841, 2001. (2) A. M. G. King et al. Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses. Elsevier Academic Press, San Diego, CA, 2011. (3) T. Tsuneyoshi et al. Arch. Virol. 143:1093, 1998.

Genetic diversity and evidence of recombination in the coat protein gene of Onion yellow dwarf virus

2015 ◽  
Vol 142 (2) ◽  
pp. 377-387
Author(s):  
Maria Bereda ◽  
Elżbieta Paduch-Cichal ◽  
Elżbieta Kalinowska ◽  
Marek Stefan Szyndel
Keyword(s):  
Genetic Diversity ◽  
Coat Protein ◽  
Coat Protein Gene ◽  
Protein Gene ◽  
Yellow Dwarf ◽  
Dwarf Virus ◽  
Onion Yellow Dwarf Virus ◽  
Yellow Dwarf Virus

scholarly journals Molecular diversity of barley yellow dwarf virus-PAV from China and the Czech Republic

2020 ◽  
Vol 19 (11) ◽  
pp. 2736-2745 ◽  
Author(s):  
May Oo KHINE ◽  
Brozenká MICHAELA ◽  
Yan LIU ◽  
Jiban Kumar KUNDU ◽  
Xi-feng WANG
Keyword(s):  
Czech Republic ◽  
Molecular Diversity ◽  
Barley Yellow Dwarf Virus ◽  
Yellow Dwarf ◽  
Dwarf Virus ◽  
The Czech Republic ◽  
Barley Yellow Dwarf ◽  
Yellow Dwarf Virus

Survey of Barley yellow dwarf virus incidence in winter cereal crops, and assessment of wheat and barley resistance to the virus

2016 ◽  
Vol 67 (10) ◽  
pp. 1054 ◽  
Author(s):  
Eva Beoni ◽  
Jana Chrpová ◽  
Jana Jarošová ◽  
Jiban Kumar Kundu
Keyword(s):  
Barley Yellow Dwarf Virus ◽  
Rhopalosiphum Padi ◽  
Wheat Breeding ◽  
Yellow Dwarf ◽  
Dwarf Virus ◽  
Cereal Crops ◽  
Winter Cereal ◽  
Barley Yellow Dwarf ◽  
Significant Difference ◽  
Yellow Dwarf Virus

A survey of Barley yellow dwarf virus (BYDV) incidence in cereal crops in the Czech Republic over 4 years showed, on average, 13.3% BYDV-positive, randomly tested wheat and barley samples. The cultivated wheat and barley cultivars had different levels of susceptibility to BYDV infection. Field trials were performed with different barley and wheat breeding lines and cultivars, and resistance traits were evaluated after artificial inculcation by the viruliferous aphid vector Rhopalosiphum padi L. with BYDV-PAV. Our results showed high variability of visual symptom score (VSS) and reduction in grain weight per spike (GWS-R) in trials within the tested lines and cultivars. The barley line (WBON 96-123) and cultivars (Wysor, Travira) that contained RYd2 differed significantly from other cultivars in VSS. Line WBON 96-123 and cvv. Wysor and Yatzi showed the lowest GWS-R. Wheat line PSR 3628 and cvv. Altigo, Elan, Sparta, Aladin and Hewit showed significant difference from other cultivars in VSS. PSR 3628, Sparta, and Elan showed the lowest GWS-R. Similar results were obtained from BYDV titre analysis by RT-qPCR corresponding to the VSS and GWS-R traits. A low virus titre corresponded to low VSS and GWS-R. Hence, our results suggest that laborious and time-consuming GWS-R analysis could be replaced in some cases by qPCR-based BYDV titre analysis and, together with VSS evaluation, could enhance the efficiency of resistance assessment.

scholarly journals First Report of Raspberry bushy dwarf virus in Rubus multibracteatus from China

Plant Disease ◽  
2003 ◽  
Vol 87 (5) ◽  
pp. 603-603 ◽  
Author(s):  
C. J. Chamberlain ◽  
J. Kraus ◽  
P. D. Kohnen ◽  
C. E. Finn ◽  
R. R. Martin
Keyword(s):  
Amino Acid ◽  
Coat Protein ◽  
Coat Protein Gene ◽  
Protein Gene ◽  
Dwarf Virus ◽  
Enzyme Linked Immunosorbent Assay ◽  
Black Raspberry ◽  
First Report ◽  
Raspberry Bushy Dwarf Virus ◽  
Plant Pathol

Raspberry bushy dwarf virus (RBDV), genus Idaeovirus, has been reported in commercial Rubus spp. from North and South America, Europe, Australia, New Zealand, and South Africa. Infection can cause reduced vigor and drupelet abortion leading to crumbly fruit and reduced yields (3,4). In recent years, Rubus germplasm in the form of seed, was obtained on several collection trips to The People's Republic of China to increase the diversity of Rubus spp. in the USDA-ARS National Clonal Germplasm Repository, (Corvallis, OR). Before planting in the field, seedlings were tested for the presence of RBDV, Tomato ringspot virus, and Tobacco streak virus using triple-antibody sandwich enzyme-linked immunosorbent assay (TAS-ELISA) (antiserum produced by R. R. Martin). One symptomless plant of R. multibracteatus H. Lev. & Vaniot (PI 618457 in USDA-ARS GRIN database), from Guizhou province in China, tested positive for RBDV (RBDV-China). After mechanical transmission on Chenopodium quinoa Willd., this isolate produced typical symptoms of RBDV (3). To determine if RBDV-China was a contaminant during the handling of the plants, or if the source was a seedborne virus, the coat protein gene was sequenced and compared to published sequences of RBDV. RNA was extracted from leaves of R. multibracteatus and subjected to reverse transcription-polymerase chain reaction (RT-PCR) using primers that flank the coat protein gene. Products from four separate PCR reactions were sequenced directly or were cloned into the plasmid vector pCR 2.1 (Invitrogen, Carlsbad, CA) and then sequenced. The coding sequence of the coat protein gene of RBDV-China was 87.5% (722/825) identical to that isolated from black raspberry (Genbank Accession No. s55890). The predicted amino acid sequences were 91.6% (251/274) identical. Previously, a maximum of five amino acid differences had been observed in the coat proteins of different RBDV strains (1). The 23 differences observed between RBDV-China and the isolate from black raspberry (s55890) confirm that the RBDV in R. multibracteatus is not a greenhouse contaminant but is indeed a unique strain of RBDV. In addition, monoclonal antibodies (MAbs) to RBDV (2) were tested against RBDV-China. In these tests, MAb D1 did not detect RBDV-China, whereas MAb R2 and R5 were able to detect the strain. This is the first strain of RBDV that has been clearly differentiated by MAbs using standard TAS-ELISA tests. Although RBDV is common in commercial Rubus spp. worldwide, to our knowledge, this is the first report of RBDV in R. multibracteatus, and the first report of RBDV from China. The effects of this new strain of RBDV could be more or less severe, or have a different host range than previously studied strains. It is more divergent from the type isolate than any other strain that has been studied to date. Phylogenetic analysis of coat protein genes of RBDV may be useful in understanding the evolution and spread of this virus. References: (1) A. T. Jones et al. Eur. J. Plant Pathol. 106:623, 2000. (2) R. R. Martin. Can. J. Plant. Pathol. 6:264, 1984. (3) A. F. Murant. Raspberry Bushy Dwarf. Page 229 in: Virus Diseases of Small Fruits. R. H. Converse, ed. U.S. Dep. Agric. Agric. Handb. 631, 1987. (4) B. Strik and R. R. Martin. Plant Dis. 87:294, 2003.

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