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Journal articles on the topic 'Bipartite Genome'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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1

Madhu, Pearl R* Gopal Pandi &. Sundara Baalaji Narayanan. "INSILICO DESIGN OF SMALL INTERFERENCE RNA (SIRNA) FOR PREVENTION OF VIRAL (BEGOMOVIRUS) DISEASES IN COMMERCIALLY VALUABLE PLANTS (TOMATO AND PULSES)." INTERNATIONAL JOURNAL OF RESEARCH SCIENCE & MANAGEMENT 4, no. 7 (2017): 61–66. https://doi.org/10.5281/zenodo.831442.

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Yellow vein mosaic or yellow leaf curl disease in tomato, okra and other pulses is transmitted by Bemisia tabaci (White fly), leading to loss of production and quality. Gene silencing is one of the powerful approaches to overcome viral based plant diseases. However it is of great challenge to design potential small interfering RNA (siRNA) molecules against genes responsible for the diseases. From the primary sequence information, using insilico approach, 15 siRNAs were designed for genes involved in pathogenicity like suppressor, movement and nuclear shuttle namely V2, C2 and C4 of monopartite

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Leiva, Ana M., Jenyfer Jimenez, Hector Sandoval, Shirley Perez, and Wilmer J. Cuellar. "Complete genome sequence of a novel secovirid infecting cassava in the Americas." Archives of Virology 167, no. 2 (2022): 665–68. http://dx.doi.org/10.1007/s00705-021-05325-2.

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AbstractWe report the complete genome sequence of a field isolate of a novel bipartite secovirid infecting cassava in Colombia, provisionally named "cassava torrado-like virus" (CsTLV). The genome sequence was obtained using Oxford Nanopore Technology, and the 5’ ends were confirmed by RACE. The RNA1 is 7252 nucleotides (nt) long, encoding a polyprotein of 2336 amino acids (aa) containing the typical “replication block”, conserved torradovirus motifs, and a Maf/Ham1 domain, which is not commonly found in viral genomes. The RNA2 is 4469 nt long and contains two overlapping ORFs encoding protein

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Kondo, Hideki, Keisuke Hirota, Kazuyuki Maruyama, Ida Bagus Andika, and Nobuhiro Suzuki. "A possible occurrence of genome reassortment among bipartite rhabdoviruses." Virology 508 (August 2017): 18–25. http://dx.doi.org/10.1016/j.virol.2017.04.027.

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Lin, Junyan, Ahmed Khamis Ali, Ping Chen, et al. "A stem–loop structure in the 5′ untranslated region of bean pod mottle virus RNA2 is specifically required for RNA2 accumulation." Journal of General Virology 94, no. 6 (2013): 1415–20. http://dx.doi.org/10.1099/vir.0.051755-0.

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Bean pod mottle virus (BPMV) is a bipartite, positive-sense (+) RNA plant virus of the family Secoviridae. Its RNA1 encodes all proteins needed for genome replication and is capable of autonomous replication. By contrast, BPMV RNA2 must utilize RNA1-encoded proteins for replication. Here, we sought to identify RNA elements in RNA2 required for its replication. The exchange of 5′ untranslated regions (UTRs) between genome segments revealed an RNA2-specific element in its 5′ UTR. Further mapping localized a 66 nucleotide region that was predicted to fold into an RNA stem–loop structure, designat

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Chattopadhyay, Anirudha, A. Abdul Kader Jailani, Anirban Roy, Sunil Kumar Mukherjee, and Bikash Mandal. "Expanding Possibilities for Foreign Gene Expression by Cucumber Green Mottle Mosaic Virus Genome-Based Bipartite Vector System." Plants 13, no. 10 (2024): 1414. http://dx.doi.org/10.3390/plants13101414.

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Expanding possibilities for foreign gene expression in cucurbits, we present a novel approach utilising a bipartite vector system based on the cucumber green mottle mosaic virus (CGMMV) genome. Traditional full-length CGMMV vectors face limitations such as a restricted cargo capacity and unstable foreign gene expression. To address these challenges, we developed two ‘deconstructed’ CGMMV genomes, DG-1 and DG-2. DG-1 features a major internal deletion, resulting in the loss of crucial replicase enzyme domains, rendering it incapable of self-replication. However, a staggered infiltration of DG-1

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Xavier, César A. D., Márcio T. Godinho, Talita B. Mar, et al. "Evolutionary dynamics of bipartite begomoviruses revealed by complete genome analysis." Molecular Ecology 30, no. 15 (2021): 3747–67. http://dx.doi.org/10.1111/mec.15997.

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7

Yu, Qingbao, Jiayu Chen, Yuhui Du, et al. "A method for building a genome-connectome bipartite graph model." Journal of Neuroscience Methods 320 (May 2019): 64–71. http://dx.doi.org/10.1016/j.jneumeth.2019.03.011.

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8

Lanza, Val F., Fernando Baquero, Fernando de la Cruz, and Teresa M. Coque. "AcCNET (Accessory Genome Constellation Network): comparative genomics software for accessory genome analysis using bipartite networks." Bioinformatics 33, no. 2 (2016): 283–85. http://dx.doi.org/10.1093/bioinformatics/btw601.

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9

Ho, Eric S., Catherine M. Newsom-Stewart, Lysa Diarra, and Caroline S. McCauley. "gb4gv: a genome browser forgeminivirus." PeerJ 5 (April 12, 2017): e3165. http://dx.doi.org/10.7717/peerj.3165.

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BackgroundGeminiviruses (familyGeminiviridae) are prevalent plant viruses that imperil agriculture globally, causing serious damage to the livelihood of farmers, particularly in developing countries. The virus evolves rapidly, attributing to its single-stranded genome propensity, resulting in worldwide circulation of diverse and viable genomes. Genomics is a prominent approach taken by researchers in elucidating the infectious mechanism of the virus. Currently, the NCBI Viral Genome website is a popular repository of viral genomes that conveniently provides researchers a centralized data sourc

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10

Chiumenti, Michela, Claudia Greco, Angelo De Stradis, et al. "Olea Europaea Geminivirus: A Novel Bipartite Geminivirid Infecting Olive Trees." Viruses 13, no. 3 (2021): 481. http://dx.doi.org/10.3390/v13030481.

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In 2014, high-throughput sequencing of libraries of total DNA from olive trees allowed the identification of two geminivirus-like contigs. After conventional resequencing of the two genomic DNAs, their analysis revealed they belonged to the same viral entity, for which the provisional name of Olea europaea geminivirus (OEGV) was proposed. Although DNA-A showed a genome organization similar to that of New World begomoviruses, DNA-B had a peculiar ORF arrangement, consisting of a movement protein (MP) in the virion sense and a protein with unknown function on the complementary sense. Phylogeneti

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Kondo, Hideki, Takanori Maeda, Yukio Shirako, and Tetsuo Tamada. "Orchid fleck virus is a rhabdovirus with an unusual bipartite genome." Journal of General Virology 87, no. 8 (2006): 2413–21. http://dx.doi.org/10.1099/vir.0.81811-0.

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Orchid fleck virus (OFV) has an unusual bipartite negative-sense RNA genome with clear sequence similarities to those of nucleorhabdoviruses. The OFV genome consists of two single-stranded RNA molecules, RNA1 and RNA2 that are 6413 and 6001 nt long, respectively, with open reading frame (ORF) information in the complementary sense. RNA1 encodes 49 (ORF1), 26 (ORF2), 38 (ORF3), 20 (ORF4) and 61 kDa (ORF5) proteins, and RNA2 encodes a single protein of 212 kDa (ORF6). ORF1, ORF5 and ORF6 proteins had significant similarities (21–38 % identity) to the nucleocapsid protein (N), glycoprotein (G) an

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Morán, Félix, Antonio Olmos, Thierry Candresse, and Ana Belén Ruiz-García. "Complete Genome Characterization of Penicillimonavirus gammaplasmoparae, a Bipartite Member of the Family Mymonaviridae." Plants 12, no. 18 (2023): 3300. http://dx.doi.org/10.3390/plants12183300.

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In this study, we identified Plasmopara-viticola-lesion-associated mononegaambi virus 3 (recently classified as Penicillimonavirus gammaplasmoparae), a fungi-associated mymonavirus, in grapevine plants showing an unusual upward curling symptomatology on the leaves and premature decline. Mymonaviridae is a family comprising nine genera of negative-sense single-stranded RNA viruses infecting filamentous fungi, although few of them have been associated with oomycetes, plants, and insects. Although the first mymonavirus genome description was reported a decade ago, the genome organization of sever

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Kass, Gideon, Gabriel Arad, Joseph Rosenbluh, et al. "Permeabilized mammalian cells as an experimental system for nuclear import of geminiviral karyophilic proteins and of synthetic peptides derived from their nuclear localization signal regions." Journal of General Virology 87, no. 9 (2006): 2709–20. http://dx.doi.org/10.1099/vir.0.82021-0.

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The plant-infecting geminiviruses deliver their genome and viral proteins into the host cell nucleus. Members of the family Geminiviridae possess either a bipartite genome composed of two ∼2.6 kb DNAs or a monopartite genome of ∼3.0 kb DNA. The bipartite genome of Bean dwarf mosaic virus (BDMV) encodes several karyophilic proteins, among them the capsid protein (CP) and BV1 (nuclear shuttle protein). A CP is also encoded by the monopartite genome of Tomato yellow leaf curl virus (TYLCV). Here, an in vitro assay system was used for direct demonstration of nuclear import of BDMV BV1 and TYLCV CP

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14

Kheyr-Pour, A., K. Bananej, G. A. Dafalla, et al. "Watermelon chlorotic stunt virus from the Sudan and Iran: Sequence Comparisons and Identification of a Whitefly-Transmission Determinant." Phytopathology® 90, no. 6 (2000): 629–35. http://dx.doi.org/10.1094/phyto.2000.90.6.629.

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The genomes of two Watermelon chlorotic stunt virus (WmCSV) isolates, one from the Sudan and one from Iran, were cloned and sequenced. Sequence relationship with other geminiviruses characterizes WmCSV as a typical Eastern Hemisphere geminivirus with a bipartite genome. The two geographically distant WmCSV isolates from Africa and the Middle East share a very high overall sequence similarity: 98% between their DNA-A and 96% between their DNA-B components, and their respective capsid proteins are identical. A single amino acid change in the capsid protein (N131D) renders WmCSV whitefly nontrans

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15

Idris, A. M., and J. K. Brown. "Cotton leaf crumple virus Is a Distinct Western Hemisphere Begomovirus Species with Complex Evolutionary Relationships Indicative of Recombination and Reassortment." Phytopathology® 94, no. 10 (2004): 1068–74. http://dx.doi.org/10.1094/phyto.2004.94.10.1068.

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The bipartite DNA genome of Cotton leaf crumple virus (CLCrV), a whitefly-transmitted begomovirus from the Sonoran Desert, was cloned and completely sequenced. The cloned CLCrV genome was infectious when biolistically delivered to cotton or bean seedlings and progeny virus was whitefly-transmissible. Koch's postulates were completed by the reproduction of characteristic leaf crumple symptoms in cotton seedlings infected with cloned CLCrV DNA, thereby verifying the etiology of leaf crumple disease, which has been known in the southwestern United States since the 1950s. Sequence comparisons conf

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Pant, Archana, Satyabrata Bag, Bipasa Saha, et al. "Molecular insights into the genome dynamics and interactions between core and acquired genomes ofVibrio cholerae." Proceedings of the National Academy of Sciences 117, no. 38 (2020): 23762–73. http://dx.doi.org/10.1073/pnas.2006283117.

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Bacterial species are hosts to horizontally acquired mobile genetic elements (MGEs), which encode virulence, toxin, antimicrobial resistance, and other metabolic functions. The bipartite genome ofVibrio choleraeharbors sporadic and conserved MGEs that contribute in the disease development and survival of the pathogens. For a comprehensive understanding of dynamics of MGEs in the bacterial genome, we engineered the genome ofV. choleraeand examined in vitro and in vivo stability of genomic islands (GIs), integrative conjugative elements (ICEs), and prophages. Recombinant vectors carrying the int

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17

Rego-Machado, Camila M., Erich Y. T. Nakasu, Rosana Blawid, Tatsuya Nagata, and Alice K. Inoue-Nagata. "Complete genome sequence of a new bipartite begomovirus infecting tomato in Brazil." Archives of Virology 164, no. 11 (2019): 2873–75. http://dx.doi.org/10.1007/s00705-019-04380-0.

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18

Geigenmuller-Gnirke, U., B. Weiss, R. Wright, and S. Schlesinger. "Complementation between Sindbis viral RNAs produces infectious particles with a bipartite genome." Proceedings of the National Academy of Sciences 88, no. 8 (1991): 3253–57. http://dx.doi.org/10.1073/pnas.88.8.3253.

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19

Shahid, Muhammad Shafiq, Mehmoona Ilyas, Abdul Waheed, and Rajarshi Kumar Gaur. "Role of Alphasatellite in Begomoviral Disease Complex." Biological Sciences - PJSIR 59, no. 1 (2016): 52–58. http://dx.doi.org/10.52763/pjsir.biol.sci.59.1.2016.52.58.

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A circular single stranded satellite, called as alphasatellite (initially identified as DNA-1), wascharacterised and confirmed to be associated with the Geminivirus begomovirus-betasatellite complexes.Alphasatellites are single stranded DNA (ssDNA) components, frequently accompanying with monopartitebegomovirus or some time with bipartite begomovirus and/or betasatellite complex. The genome ofalphasatellite DNAs are nearly half size of its helper virus genome and have no similarity with it. Furthermore,their function in begomovirus-betasatellite complex is still unclear. Recent advances in app

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20

Hsiao, Jack S., Noelle D. Germain, Andrea Wilderman, et al. "A bipartite boundary element restrictsUBE3Aimprinting to mature neurons." Proceedings of the National Academy of Sciences 116, no. 6 (2019): 2181–86. http://dx.doi.org/10.1073/pnas.1815279116.

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Angelman syndrome (AS) is a severe neurodevelopmental disorder caused by the loss of function from the maternal allele ofUBE3A, a gene encoding an E3 ubiquitin ligase.UBE3Ais only expressed from the maternally inherited allele in mature human neurons due to tissue-specific genomic imprinting. Imprinted expression ofUBE3Ais restricted to neurons by expression ofUBE3A antisense transcript(UBE3A-ATS) from the paternally inherited allele, which silences the paternal allele ofUBE3Aincis. However, the mechanism restrictingUBE3A-ATSexpression andUBE3Aimprinting to neurons is not understood. We used C

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Nonet, Michael L. "Efficient Transgenesis in Caenorhabditis elegans Using Flp Recombinase-Mediated Cassette Exchange." Genetics 215, no. 4 (2020): 903–21. http://dx.doi.org/10.1534/genetics.120.303388.

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The application of CRISPR technology has greatly facilitated the creation of transgenic Caenorhabditis elegans lines. However, methods to insert multi-kilobase DNA constructs remain laborious even with these advances. Here, I describe a new approach for introducing large DNA constructs into the C. elegans genome at specific sites using a combination of Flp and Cre recombinases. The system utilizes specialized integrated landing sites that express GFP ubiquitously flanked by single loxP, FRT, and FRT3 sites. DNA sequences of interest are inserted into an integration vector that contains a sqt-1

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22

Hagen, C., M. R. Rojas, M. R. Sudarshana, et al. "Biology and Molecular Characterization of Cucurbit leaf crumple virus, an Emergent Cucurbit-Infecting Begomovirus in the Imperial Valley of California." Plant Disease 92, no. 5 (2008): 781–93. http://dx.doi.org/10.1094/pdis-92-5-0781.

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Cucurbit leaf crumple virus (CuLCrV) is an emergent and potentially economically important bipartite begomovirus first identified in volunteer watermelon plants in the Imperial Valley of southern California in 1998. Field surveys indicated that CuLCrV has become established in the Imperial Valley; and field plot studies revealed that CuLCrV primarily infects cucurbits, including cantaloupe, squash, and watermelon. Full-length DNA-A and DNA-B clones of an Imperial Valley isolate of CuLCrV were obtained by polymerase chain reaction (PCR) with overlapping primers. These clones were infectious in

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23

Venter, P. Arno, Neel K. Krishna, and Anette Schneemann. "Capsid Protein Synthesis from Replicating RNA Directs Specific Packaging of the Genome of a Multipartite, Positive-Strand RNA Virus." Journal of Virology 79, no. 10 (2005): 6239–48. http://dx.doi.org/10.1128/jvi.79.10.6239-6248.2005.

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ABSTRACT Flock house virus (FHV) is a bipartite, positive-strand RNA insect virus that encapsidates its two genomic RNAs in a single virion. It provides a convenient model system for studying the principles underlying the copackaging of multipartite viral RNA genomes. In this study, we used a baculovirus expression system to determine if the uncoupling of viral protein synthesis from RNA replication affected the packaging of FHV RNAs. We found that neither RNA1 (which encodes the viral replicase) nor RNA2 (which encodes the capsid protein) were packaged efficiently when capsid protein was supp

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Giordano, L. de B., I. C. Bezerra, P. T. O. Ferreira, and C. R. Borges Neto. "BREEDING TOMATOES FOR RESISTANCE TO WHITEFLY-TRANSMITTED GEMINIVIRUS WITH BIPARTITE GENOME IN BRAZIL." Acta Horticulturae, no. 487 (March 1999): 357–60. http://dx.doi.org/10.17660/actahortic.1999.487.57.

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Roberts, Eulian J. F., K. W. Buck, and R. H. A. Coutts. "Characterization of Potato Yellow Mosaic Virus as a Geminivirus with a Bipartite Genome." Intervirology 29, no. 3 (1988): 162–69. http://dx.doi.org/10.1159/000150042.

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26

Chang-Sidorchuk, Lidia, Heidy González-Alvarez, Jesús Navas-Castillo, Elvira Fiallo-Olivé, and Yamila Martínez-Zubiaur. "Complete genome sequences of two novel bipartite begomoviruses infecting common bean in Cuba." Archives of Virology 162, no. 5 (2017): 1431–33. http://dx.doi.org/10.1007/s00705-016-3209-9.

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27

Passos, Laise S., Janaína S. Rodrigues, Érica Cristina S. Soares, et al. "Complete genome sequence of a new bipartite begomovirus infecting Macroptilium lathyroides in Brazil." Archives of Virology 162, no. 11 (2017): 3551–54. http://dx.doi.org/10.1007/s00705-017-3522-y.

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Zhao, Liling, Jing Zhong, Xiaoyun Zhang, Ming Ding, and Zhongkai Zhang. "Complete genome sequence of a new bipartite begomovirus infecting Boehmeria leiophylla in China." Archives of Virology 163, no. 7 (2018): 1989–92. http://dx.doi.org/10.1007/s00705-018-3802-1.

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29

Sarkar, Bijan. "A Study of Computational Genome Assembly by Graph Theory." Annals of West University of Timisoara - Mathematics and Computer Science 60, no. 1 (2024): 1–24. http://dx.doi.org/10.2478/awutm-2024-0001.

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Abstract The assembly of billions of short sequencing reads into a contiguous genome is a daunting task. The foundation knowledge of current DNA assembly models is concentrated among a select group, where the solution to the genome assembly challenge lies in proper ordering the genomic data. This contribution’s objective is to provide an overview of the original graph models used in DNA sequencing by hybridization. With the updated analytical approach based on the bidirectional bipartite graph class, the theoretical basic structure of the DNA assembly model has been described in new perspectiv

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Ozawa, Makoto, Ken Fujii, Yukiko Muramoto, et al. "Contributions of Two Nuclear Localization Signals of Influenza A Virus Nucleoprotein to Viral Replication." Journal of Virology 81, no. 1 (2006): 30–41. http://dx.doi.org/10.1128/jvi.01434-06.

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ABSTRACT The RNA genome of influenza A virus, which forms viral ribonucleoprotein complexes (vRNPs) with viral polymerase subunit proteins (PA, PB1, and PB2) and nucleoprotein (NP), is transcribed and replicated in the nucleus. NP, the major component of vRNPs, has at least two amino acid sequences that serve as nuclear localization signals (NLSs): an unconventional NLS (residues 3 to 13; NLS1) and a bipartite NLS (residues 198 to 216; NLS2). Although both NLSs are known to play a role in nuclear transport, their relative contributions to viral replication are poorly understood. We therefore i

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Li, Rui, Pengfei Chang, Peng Lü, et al. "Characterization of the RNA Transcription Profile of Bombyx mori Bidensovirus." Viruses 11, no. 4 (2019): 325. http://dx.doi.org/10.3390/v11040325.

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Bombyx mori bidensovirus (BmBDV) is a single-stranded DNA (ssDNA) virus from the genus Bidensovirus of the Bidnaviridae family, which, thus far, solely infects insects. It has a unique genome that contains bipartite DNA molecules (VD1 and VD2). In this study, we explored the detailed transcription mapping of the complete BmBDV genome (VD1 and VD2) by rapid amplification of cDNA ends (RACE), reverse transcription quantitative real-time PCR (RT-qPCR), and luciferase assays. For the first time, we report the transcription map of VD2. Our mapping of the transcriptional start sites reveals that the

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Bratsch, Sara, Benham Lockhart, and Dimitre Mollov. "Characterization of a New Nepovirus Causing a Leaf Mottling Disease in Petunia hybrida." Plant Disease 101, no. 6 (2017): 1017–21. http://dx.doi.org/10.1094/pdis-12-16-1785-re.

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Icosahedral virus-like particles were isolated from Petunia hybrida cuttings with interveinal chlorotic mottling. The virus was transmitted by mechanical inoculation from infected to healthy P. hybrida, and was found to contain a bipartite RNA genome of 7.6 and 3.8 kilobases. Full genomic sequence was obtained by high-throughput sequencing combined with RACE amplification of the 5′-termini of RNAs 1 and 2, and reverse-transcription PCR amplification of the 3′-termini with oligo-dT and sequence specific primers. Based on particle morphology, genome organization, and phylogenetic analyses, it wa

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Paplomatas, Epaminondas J. "Molecular Characterization of a New Sap-Transmissible Bipartite Genome Geminivirus Infecting Tomatoes in Mexico." Phytopathology 84, no. 10 (1994): 1215. http://dx.doi.org/10.1094/phyto-84-1215.

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O'Neill, Frank J., and Thomas H. Miller. "Isolation of a papovavirus with a bipartite genome containing unlinked SV40 and BKV sequences." Virology 143, no. 1 (1985): 75–87. http://dx.doi.org/10.1016/0042-6822(85)90098-4.

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Petty, Ian T. D., Shannon C. Carter, Marc R. Morra, Jerry L. Jeffrey, and Harold E. Olivey. "Bipartite Geminivirus Host Adaptation Determined Cooperatively by Coding and Noncoding Sequences of the Genome." Virology 277, no. 2 (2000): 429–38. http://dx.doi.org/10.1006/viro.2000.0620.

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Materatski, Patrick, Susan Jones, Mariana Patanita, et al. "A Bipartite Geminivirus with a Highly Divergent Genomic Organization Identified in Olive Trees May Represent a Novel Evolutionary Direction in the Family Geminiviridae." Viruses 13, no. 10 (2021): 2035. http://dx.doi.org/10.3390/v13102035.

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Olea europaea Geminivirus (OEGV) was recently identified in olive in Italy through HTS. In this work, we used HTS to show the presence of an OEGV isolate in Portuguese olive trees and suggest the evolution direction of OEGV. The bipartite genome (DNA-A and DNA-B) of the OEGV-PT is similar to Old World begomoviruses in length, but it lacks a pre-coat protein (AV2), which is a typical feature of New World begomoviruses (NW). DNA-A genome organization is closer to NW, containing four ORFs; three in complementary-sense AC1/Rep, AC2/TrAP, AC3/REn and one in virion-sense AV1/CP, but no AC4, typical

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Weigel, Karin, Jens O. Pohl, Christina Wege, and Holger Jeske. "A Population Genetics Perspective on Geminivirus Infection." Journal of Virology 89, no. 23 (2015): 11926–34. http://dx.doi.org/10.1128/jvi.01956-15.

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ABSTRACTThe selective accumulation of both DNA components of a bipartite geminivirus,Abutilonmosaic virus, was recorded during early systemic infection ofNicotiana benthamianaplants. Purified nuclei were diagnosed for viral DNA using hybridization specific for DNA A or DNA B to detect these individual genome components either alone or both simultaneously by dual-color staining. Although this virus needs both components for symptomatic infection, DNA A alone was transported to upper leaves, where it was imported into phloem nuclei and replicated autonomously. The coinfection with DNA A and DNA

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Pei, Shaojun, Rui Dong, Yiming Bao, Rong Lucy He, and Stephen S. T. Yau. "Classification of genomic components and prediction of genes of Begomovirus based on subsequence natural vector and support vector machine." PeerJ 8 (August 3, 2020): e9625. http://dx.doi.org/10.7717/peerj.9625.

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Background Begomoviruses are widely distributed and causing devastating diseases in many crops. According to the number of genomic components, a begomovirus is known as either monopartite or bipartite begomovirus. Both the monopartite and bipartite begomoviruses have the DNA-A component which encodes all essential proteins for virus functions, while the bipartite begomoviruses still contain the DNA-B component. The satellite molecules, known as betasatellites, alphasatellites or deltasatellites, sometimes exist in the begomoviruses. So, the genomic components of begomoviruses are complex and v

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Martinez, Y., C. de Blas, I. Zabalgogeazcoa, et al. "A Bipartite Geminivirus Infecting Tomatoes in Cuba." Plant Disease 81, no. 10 (1997): 1215. http://dx.doi.org/10.1094/pdis.1997.81.10.1215c.

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Whitefly-transmitted geminiviruses have increased in their distribution and importance during the last decade, apparently due to a wider distribution of their vector Bemisia tabaci (Gennadius). In Cuba, symptoms of geminivirus disease have been observed since the early 1990s. A survey of geminivirus-caused diseases in tomato plants has been conducted since 1994 in the province of La Habana. The most severe symptoms were observed in the commercial varieties Campbell 28, Criollo Quivican, and HC 3880. In some plants the Israeli strain of tomato yellow leaf curl geminivirus (TYLCV) was detected (

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Quito-Avila, Diego F., Philip M. Brannen, William O. Cline, Philip F. Harmon, and Robert R. Martin. "Genetic characterization of Blueberry necrotic ring blotch virus, a novel RNA virus with unique genetic features." Journal of General Virology 94, no. 6 (2013): 1426–34. http://dx.doi.org/10.1099/vir.0.050393-0.

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A new disorder was observed on southern highbush blueberries in several south-eastern states in the USA. Symptoms included irregularly shaped circular spots or blotches with green centres on the upper and lower surfaces of leaves. Double-stranded RNA was extracted from symptomatic leaves suggesting the presence of virus(es) possibly involved in the disease. Sequencing revealed the presence of a novel RNA virus with a ~14 kb genome divided into four RNA segments. Sequence analyses showed that the virus, for which we propose the name Blueberry necrotic ring blotch virus (BNRBV), possesses protei

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Klaassen, Vicki A., Maury L. Boeshore, Eugene V. Koonin, Tongyan Tian, and Bryce W. Falk. "Genome Structure and Phylogenetic Analysis of Lettuce Infectious Yellows Virus, a Whitefly-Transmitted, Bipartite Closterovirus." Virology 208, no. 1 (1995): 99–110. http://dx.doi.org/10.1006/viro.1995.1133.

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Sattar, Muhammad Naeem. "In Planta Interaction and Transreplication of Distinct Begomoviruses and their Associated Components." International Journal of Agriculture and Biology 26, no. 01 (2021): 45–51. http://dx.doi.org/10.17957/ijab/15.1807.

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The studies described here were intended to examine the transreplication and interactions abilities of a widespread ToLCNDV, and an emerging begomovirus PeLCV associated with its cognate betasatellite TbLCuB. PeLCV, a monopartite begomovirus, has been characterized from many important crops, vegetables and weeds along with its associated TbLCuB. The DNA-B of bipartite ToLCNDV genome has been successfully transreplicated by the DNA-A of different bipartite begomoviruses, albeit with low frequency. Whether PeLCV can transreplicate DNA-B of ToLCNDV is unknown. To unravel this notion, both these v

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Ankill, Jørgen, Zhi Zhao, Xavier Tekpli, et al. "Integrative pan-cancer analysis reveals a common architecture of dysregulated transcriptional networks characterized by loss of enhancer methylation." PLOS Computational Biology 20, no. 11 (2024): e1012565. http://dx.doi.org/10.1371/journal.pcbi.1012565.

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Aberrant DNA methylation contributes to gene expression deregulation in cancer. However, these alterations’ precise regulatory role and clinical implications are still not fully understood. In this study, we performed expression-methylation Quantitative Trait Loci (emQTL) analysis to identify deregulated cancer-driving transcriptional networks linked to CpG demethylation pan-cancer. By analyzing 33 cancer types from The Cancer Genome Atlas, we identified and confirmed significant correlations between CpG methylation and gene expression (emQTL) in cis and trans, both across and within cancer ty

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Weik, Michael, Sven Enterlein, Kathrin Schlenz, and Elke Mühlberger. "The Ebola Virus Genomic Replication Promoter Is Bipartite and Follows the Rule of Six." Journal of Virology 79, no. 16 (2005): 10660–71. http://dx.doi.org/10.1128/jvi.79.16.10660-10671.2005.

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ABSTRACT In this work we investigated the cis-acting signals involved in replication of Ebola virus (EBOV) genomic RNA. A set of mingenomes with mutant 3′ ends were generated and used in a reconstituted replication and transcription system. Our results suggest that the EBOV genomic replication promoter is bipartite, consisting of a first element located within the leader region of the genome and a second, downstream element separated by a spacer region. While proper spacing of the two promoter elements is a prerequisite for replication, the nucleotide sequence of the spacer is not important. R

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Johnson, Karyn N., Jean-Louis Zeddam, and L. Andrew Ball. "Characterization and Construction of Functional cDNA Clones of Pariacoto Virus, the First Alphanodavirus Isolated outside Australasia." Journal of Virology 74, no. 11 (2000): 5123–32. http://dx.doi.org/10.1128/jvi.74.11.5123-5132.2000.

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ABSTRACT Pariacoto virus (PaV) was recently isolated in Peru from the Southern armyworm (Spodoptera eridania). PaV particles are isometric, nonenveloped, and about 30 nm in diameter. The virus has a bipartite RNA genome and a single major capsid protein with a molecular mass of 39.0 kDa, features that support its classification as aNodavirus. As such, PaV is the firstAlphanodavirus to have been isolated from outside Australasia. Here we report that PaV replicates in wax moth larvae and that PaV genomic RNAs replicate when transfected into cultured baby hamster kidney cells. The complete nucleo

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Talakayala, Ashwini, Veerapaneni Bindu Prathyusha, Dhanasekar Divya, Srinivas Ankanagari, and Mallikarjuna Garladinne. "Molecular Cloning of MYMV Genome and Infectivity of Yellow Mosaic Virus in Green Gram Using Different Viral Transmission Tools." Biosciences Biotechnology Research Asia 18, no. 3 (2021): 467–78. http://dx.doi.org/10.13005/bbra/2932.

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Mungbean yellow mosaic virus (MYMV) causes massive crop losses in green gram. MYMV is a member of begomovirus with bipartite genome comprising DNA-A and DNA-B components, which is transmitted by whiteflies. Cloning and preparation of infectious clone is very much essential for screening germplasm or transgenic material of pulse crops since viruliferous whiteflies may not be available throughout the year. In the current work, we have amplified rolling circle mediated viral genome of MYMV using Φ29 DNA polymerase. The amplified products was digested and cloned into the plant expression vector pC

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Payet, Vincent, Claire Arnauld, Jean-Paul Picault, André Jestin, and Patrick Langlois. "Transcriptional Organization of the Avian Adenovirus CELO." Journal of Virology 72, no. 11 (1998): 9278–85. http://dx.doi.org/10.1128/jvi.72.11.9278-9285.1998.

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ABSTRACT A detailed map of the transcriptional organization of the CELO virus genome was produced. Recent computer analysis of CELO virus has indicated the presence of 38 putative open reading frames (ORFs). This study, based on analysis of the transcriptional products of CELO in vitro, confirmed the presence of RNAs for 26 of these 38 ORFs. All of the results were obtained by cDNA isolation or specific reverse transcriptase PCR. Observation of ORF transcription kinetics postinfection revealed the existence of early and late expression, with the earliest starting at 2 h postinfection. The 5′ u

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Ramos, P. L., O. Guerra, R. Peral, P. Oramas, R. G. Guevara, and R. Rivera-Bustamante. "Taino Tomato Mottle Virus, a New Bipartite Geminivirus from Cuba." Plant Disease 81, no. 9 (1997): 1095. http://dx.doi.org/10.1094/pdis.1997.81.9.1095c.

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Geminiviruses have become the most important virus group affecting tomatoes (Lycopersicon lycopersicum (L.) Karsten) in Cuba since they have been detected in all tomato-producing areas, causing serious losses. Recently, a whitefly-transmitted, monopartite geminivirus was detected in Cuba and identified as tomato yellow leaf curl virus-Israel (TYLCV-Is) (1). Samples collected from the main tomato-producing areas during the period 1995 to1996 were further analyzed by polymerase chain reaction (PCR) with degenerate primers (PAL1v1978 and PAR1c496) (2). Whereas in samples from most areas only TYLC

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Suzuki, Sho W., Ya-Shan Chuang, Ming Li, Matthew N. J. Seaman, and Scott D. Emr. "A bipartite sorting signal ensures specificity of retromer complex in membrane protein recycling." Journal of Cell Biology 218, no. 9 (2019): 2876–86. http://dx.doi.org/10.1083/jcb.201901019.

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Retromer is an evolutionarily conserved protein complex, which sorts functionally diverse membrane proteins into recycling tubules/vesicles from the endosome. Many of the identified cargos possess a recycling signal sequence defined as ØX[L/M/V], where Ø is F/Y/W. However, this sequence is present in almost all proteins encoded in the genome. Also, several identified recycling sequences do not follow this rule. How then does retromer precisely select its cargos? Here, we reveal that an additional motif is also required for cargo retrieval. The two distinct motifs form a bipartite recycling sig

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Randles, J. W., and W. Rohde. "Nicotiana Velutina Mosaic Virus: Evidence for a Bipartite Genome Comprising 3 kb and 8 kb RNAs." Journal of General Virology 71, no. 5 (1990): 1019–27. http://dx.doi.org/10.1099/0022-1317-71-5-1019.

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