2021
Larrea-Sarmiento A, Stack JP, Alvarez AM, Arif M (2021). Multiplex recombinase polymerase amplification assay developed using unique genomic regions for rapid on-site detection of genus Clavibacter and C. nebraskensis. Scientific Reports, 11, 12017. doi.org/10.1038/s41598-021-91336-7
Klair D, Silva J, Arizala D, Boluk G, Dobhal S, Ahmad AA, Uyeda J, Alvarez AM, Arif M (2021). First Report of Pectobacterium brasiliense causing soft rot on mizuna (Brassica rapa var. japonica) in the United States. Plant Dis.doi.org/10.1094/PDIS-03-21-0644-PDN
Boluk G, Arizala D, Dobhal S, Zhang J, Hu J, Alvarez AM, Arif M (2021). Genomic and phenotypic biology of novel strains of Dickeya zeae isolated from pineapple and taro in Hawaii: insights into genome plasticity, pathogenicity, and virulence determinants. BioRxiv, doi.org/10.1101/2021.01.28.428661
Arif M, Busot GY, Mann R, Rodoni B, Stack JP (2021). Multiple internal controls enhance reliability for PCR and real time PCR detection of Rathayibacter toxicus. Scientific Reports, 11, 8365, doi.org/10.1038/s41598-021-87815-6
Klair D, Boluk G, Silva J, Arizala D, Dobhal S, Arif M (2021). First report of bacterial soft rot disease on pak choi (Brassica rapa subsp. chinensis) caused by Pectobacterium brasiliense in the United States. Plant Dis. doi.org/10.1094/PDIS-08-20-1854-PDN
Ramachandran S, Dobhal S, Alvarez AM, Arif M (2021). Improved multiplex TaqMan qPCR assay with universal internal control offers reliable and accurate detection of Clavibacter michiganensis. J Appl Microbiol, doi.org/10.1111/jam.15017
Larrea-Sarmiento A, Stack JP, Alvarez AM, Arif M (2021). Multiplex recombinase polymerase amplification assay developed using unique genomic regions for rapid on-site detection of genus Clavibacter and C. nebraskensis. Scientific Reports, 11, 12017. doi.org/10.1038/s41598-021-91336-7
Klair D, Silva J, Arizala D, Boluk G, Dobhal S, Ahmad AA, Uyeda J, Alvarez AM, Arif M (2021). First Report of Pectobacterium brasiliense causing soft rot on mizuna (Brassica rapa var. japonica) in the United States. Plant Dis.doi.org/10.1094/PDIS-03-21-0644-PDN
Boluk G, Arizala D, Dobhal S, Zhang J, Hu J, Alvarez AM, Arif M (2021). Genomic and phenotypic biology of novel strains of Dickeya zeae isolated from pineapple and taro in Hawaii: insights into genome plasticity, pathogenicity, and virulence determinants. BioRxiv, doi.org/10.1101/2021.01.28.428661
Arif M, Busot GY, Mann R, Rodoni B, Stack JP (2021). Multiple internal controls enhance reliability for PCR and real time PCR detection of Rathayibacter toxicus. Scientific Reports, 11, 8365, doi.org/10.1038/s41598-021-87815-6
Klair D, Boluk G, Silva J, Arizala D, Dobhal S, Arif M (2021). First report of bacterial soft rot disease on pak choi (Brassica rapa subsp. chinensis) caused by Pectobacterium brasiliense in the United States. Plant Dis. doi.org/10.1094/PDIS-08-20-1854-PDN
Ramachandran S, Dobhal S, Alvarez AM, Arif M (2021). Improved multiplex TaqMan qPCR assay with universal internal control offers reliable and accurate detection of Clavibacter michiganensis. J Appl Microbiol, doi.org/10.1111/jam.15017
2020
Zhang J, Arif M, Shen H, Hu J, Sun D, Pu X, Yang Q, Lin B (2020). Genomic divergence between Dickeya zeae strain EC2 isolated from rice and previously identified strains, suggests a different rice foot rot strain. PLoS ONE, 15(10), e0240908. doi.org/10.1371/journal.pone.0240908
Paudel S, Dobhal S, Alvarez AM, Arif M (2020). Taxonomy and phylogenetic research on Ralstonia solanacearum: a complex pathogen with extraordinary economic consequences. Pathogens. doi.org/10.3390/pathogens9110886
Andreason SA, Arif M, Brown JK, Ochoa-Corona F, Fletcher J, Wayadande A (2020). Exploring the use of high resolution melting analysis and helicase dependent amplification for discrimination of Bemisia tabaci (Hemiptera: Aleyrodidae) cryptic species and Trialeurodes vaporariorum, J Econ Entomol. doi.org/10.1093/jee/toaa180
Boluk G, Arizala D, Ocenar J, Mokwele J, Silva J, Dobhal S, Uyeda J, Alvarez AM, Arif M (2020). First report of Pectobacterium brasiliense causing soft rot on Brassica oleracea var. sabellica L. in Hawaii, United States. Plant Dis. doi.org/10.1094/PDIS-04-20-0701-PDN
Arizala D, Dobhal S, Paudel S, Boluk G, Silva J, Ahmad AA, Uyeda J, Sugano J, Alvarez AM, Arif M (2020). First report of Pectobacterium brasiliense causing bacterial soft rot and blackleg diseases of potato in Hawaii. Plant Dis. doi.org/10.1094/PDIS-02-20-0395-PDN
Yasuhara-Bell J, Arif M, Busot G, Mann R, Rodoni B, Stack J (2020). Comparative genomic analysis confirms five genetic populations of the Select Agent, Rathayibacter toxicus. Microorganisms, 8, 366; doi:10.3390/microorganisms8030366
Boluk G, Dobhal S, Crockford AB, Melzer MJ, Alvarez AM, Arif M (2020). Genome-informed recombinase polymerase amplification assay coupled with a lateral flow device for in-field detection of Dickeya species. Plant Dis. doi.org/10.1094/PDIS-09-19-1988-RE
Dobhal S, Boluk G, Babler B, Stulberg MJ, Rascoe J, Nakhla M, Chapman TA, Crockford AB, Melzer MJ, Alvarez AM, Arif M (2020). Comparative genomics reveals signature regions used to develop a robust and sensitive multiplex TaqMan real-time qPCR assay to detect the genus Dickeya and Dickeya dianthicola. J Appl Microbiol, doi.org/10.1111/jam.14579
Zhang J, Arif M, Shen H, Hu J, Sun D, Pu X, Yang Q, Lin B (2020). Genomic divergence between Dickeya zeae strain EC2 isolated from rice and previously identified strains, suggests a different rice foot rot strain. PLoS ONE, 15(10), e0240908. doi.org/10.1371/journal.pone.0240908
Paudel S, Dobhal S, Alvarez AM, Arif M (2020). Taxonomy and phylogenetic research on Ralstonia solanacearum: a complex pathogen with extraordinary economic consequences. Pathogens. doi.org/10.3390/pathogens9110886
Andreason SA, Arif M, Brown JK, Ochoa-Corona F, Fletcher J, Wayadande A (2020). Exploring the use of high resolution melting analysis and helicase dependent amplification for discrimination of Bemisia tabaci (Hemiptera: Aleyrodidae) cryptic species and Trialeurodes vaporariorum, J Econ Entomol. doi.org/10.1093/jee/toaa180
Boluk G, Arizala D, Ocenar J, Mokwele J, Silva J, Dobhal S, Uyeda J, Alvarez AM, Arif M (2020). First report of Pectobacterium brasiliense causing soft rot on Brassica oleracea var. sabellica L. in Hawaii, United States. Plant Dis. doi.org/10.1094/PDIS-04-20-0701-PDN
Arizala D, Dobhal S, Paudel S, Boluk G, Silva J, Ahmad AA, Uyeda J, Sugano J, Alvarez AM, Arif M (2020). First report of Pectobacterium brasiliense causing bacterial soft rot and blackleg diseases of potato in Hawaii. Plant Dis. doi.org/10.1094/PDIS-02-20-0395-PDN
Yasuhara-Bell J, Arif M, Busot G, Mann R, Rodoni B, Stack J (2020). Comparative genomic analysis confirms five genetic populations of the Select Agent, Rathayibacter toxicus. Microorganisms, 8, 366; doi:10.3390/microorganisms8030366
Boluk G, Dobhal S, Crockford AB, Melzer MJ, Alvarez AM, Arif M (2020). Genome-informed recombinase polymerase amplification assay coupled with a lateral flow device for in-field detection of Dickeya species. Plant Dis. doi.org/10.1094/PDIS-09-19-1988-RE
Dobhal S, Boluk G, Babler B, Stulberg MJ, Rascoe J, Nakhla M, Chapman TA, Crockford AB, Melzer MJ, Alvarez AM, Arif M (2020). Comparative genomics reveals signature regions used to develop a robust and sensitive multiplex TaqMan real-time qPCR assay to detect the genus Dickeya and Dickeya dianthicola. J Appl Microbiol, doi.org/10.1111/jam.14579
2019
Arizala D, Arif M (2019). Genome-Wide Analyses Revealed Remarkable Heterogeneity in Pathogenicity Determinants, Antimicrobial Compounds, and CRISPR-Cas Systems of Complex Phytopathogenic Genus Pectobacterium. Pathogens, 8, 247, doi:10.3390/pathogens8040247
Dhakal U, Dobhal S, Alvarez AM, Arif M (2019). Phylogenetic analyses of xanthomonads causing bacterial leaf spot of tomato and pepper: Xanthomonas euvesicatoria revealed homologous populations despite distant geographical distribution. Microorganisms, 7, 462, doi:10.3390/microorganisms7100462. Click here
Arizala D, Dobhal S, Paudel S, Gunarathne S, Boluk G, Arif M (2019). First report of bacterial soft rot and blackleg on potato caused by Pectobacterium parmentieri in Hawaii. Plant Dis. doi.org/10.1094/PDIS-09-19-1894-PDN
Larrea-Sarmiento A, Alvarez AM, Stack JP, Arif M (2019). Synergetic effect of non-complementary 5’ AT-rich sequences on the development of a multiplex TaqMan real-time PCR for specific and robust detection of Clavibacter michiganensis and C. michiganensis subsp. nebraskensis. PLoS ONE 14(7):e0218530. doi.org/10.1371/journal.pone.0218530. Click here
Ocenar J, Arizala D, Boluk G, Dhakal U, Gunarathne S, Paudel S, Dobhal S, Arif M (2019). Development of a robust, field-deployable loop-mediated isothermal amplification (LAMP) assay for specific detection of potato pathogen Dickeya dianthicola targeting a unique genomic region. PLoS ONE, 14(6):e0218868. doi.org/10.1371/journal.pone.0218868. Click here
Dobhal S, Larrea-Sarmiento A, Alvarez AM, Arif M (2019) Development of a loop-mediated isothermal amplification assay for specific detection of all known subspecies of Clavibacter michiganensis. J Appl Microbiol, 126, 388-401. doi: 10.1111/jam.14128; Click here
Boluk G, Arif M (2019). First report of Dickeya dianthicola as a causal agent of bacterial soft rot of potato in Hawaii. Plant Dis, doi.org/10.1094/PDIS-11-18-2094-PDN
Arizala D, Arif M (2019). Genome-Wide Analyses Revealed Remarkable Heterogeneity in Pathogenicity Determinants, Antimicrobial Compounds, and CRISPR-Cas Systems of Complex Phytopathogenic Genus Pectobacterium. Pathogens, 8, 247, doi:10.3390/pathogens8040247
Dhakal U, Dobhal S, Alvarez AM, Arif M (2019). Phylogenetic analyses of xanthomonads causing bacterial leaf spot of tomato and pepper: Xanthomonas euvesicatoria revealed homologous populations despite distant geographical distribution. Microorganisms, 7, 462, doi:10.3390/microorganisms7100462. Click here
Arizala D, Dobhal S, Paudel S, Gunarathne S, Boluk G, Arif M (2019). First report of bacterial soft rot and blackleg on potato caused by Pectobacterium parmentieri in Hawaii. Plant Dis. doi.org/10.1094/PDIS-09-19-1894-PDN
Larrea-Sarmiento A, Alvarez AM, Stack JP, Arif M (2019). Synergetic effect of non-complementary 5’ AT-rich sequences on the development of a multiplex TaqMan real-time PCR for specific and robust detection of Clavibacter michiganensis and C. michiganensis subsp. nebraskensis. PLoS ONE 14(7):e0218530. doi.org/10.1371/journal.pone.0218530. Click here
Ocenar J, Arizala D, Boluk G, Dhakal U, Gunarathne S, Paudel S, Dobhal S, Arif M (2019). Development of a robust, field-deployable loop-mediated isothermal amplification (LAMP) assay for specific detection of potato pathogen Dickeya dianthicola targeting a unique genomic region. PLoS ONE, 14(6):e0218868. doi.org/10.1371/journal.pone.0218868. Click here
Dobhal S, Larrea-Sarmiento A, Alvarez AM, Arif M (2019) Development of a loop-mediated isothermal amplification assay for specific detection of all known subspecies of Clavibacter michiganensis. J Appl Microbiol, 126, 388-401. doi: 10.1111/jam.14128; Click here
Boluk G, Arif M (2019). First report of Dickeya dianthicola as a causal agent of bacterial soft rot of potato in Hawaii. Plant Dis, doi.org/10.1094/PDIS-11-18-2094-PDN
2018
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Hynson NA, Frank KL, Alegado RA, Amend AS, Arif M, Bennett GM, Jani AJ, Medeiros MCI, Mileyko Y, Nelson CE, Nguyen NH, Nigro OD, Prisic S, Shin S, Takagi D, Wilson ST, Yew JY (2018) Synergy among Microbiota and Their Hosts: Leveraging the Hawaiian Archipelago and Local Collaborative Networks To Address Pressing Questions in Microbiome Research. mSystems 3:e00159-17. doi:10.1128/mSystems.00159-17; Click here
Larrea-Sarmiento A, Dhakal U, Boluk G, Fatdal L, Alvarez AM, Strayer-Scherer A, Paret M, Jones J, Jenkins D, Arif M (2018) Development of a genome-informed loop-mediated isothermal amplification assay for rapid and specific detection of Xanthomonas euvesicatoria. Scientific Reports, 8:14298. doi.10.1038/s41598-018-32295-4; Click here Ahmed FA, Larrea-Sarmiento A, Alvarez AM, Arif M (2018) Genome-informed diagnostics for specific and rapid detection of Pectobacterium species using recombinase polymerase amplification coupled with a lateral flow device. Scientific Reports, 8:15972. doi:10.1038/s41598-018-34275-0; Click here |
2017
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Ahmed FA, Arif M, Alvarez AM (2017) Antibacterial effect of potassium tetraborate tetrahydrate against soft rot disease agent Pectobacterium carotovorum in tomato. Frontier in Microbiology, 8:1728. doi.10.3389/fmicb.2017.01728
Andreason SA, Arif M, Brown JK, Ochoa-Corona F, Fletcher J, Wayadande A (2017). Single-target and multiplex discrimination of whiteflies (Hemiptera: Aleyrodidae) Bemisia tabaci and Trialeurodes vaporariorum with modified priming oligonucleotide thermodynamics, J Econ Entomol, 110, 1821-1830; doi.10.1093/jee/tox125 Yasuhara-Bell JH, Marrero G, Arif M, de Silva A, Alvarez A (2017). Development of a Loop-Mediated Isothermal Amplification (LAMP) assay for the detection of Dickeya spp. Phytopathology, 107, 1339-1345. doi.10.1094/PHYTO-04-17-0160-R |
Publications before coming to UHM (ONLY last 5 years )
2016
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Arif M, Busot GY, Mann R, Rodoni B, Liu S, Stack JP (2016) Emergence of a new population of Rathayibacter toxicus: an ecologically complex; geographically isolated bacterium. PLoS ONE, 11(5), e015618; doi: 10.1371/journal.pone.0156182
Dobhal S, Olsen J, Arif M, Garcia-Suarez JA, Ochoa-Corona FM (2016) A simplified strategy for sensitive detection of Rose rosette virus compatible with three RT-PCR chemistries. J Virol Methods, 232, 47-56; Click here |
2015
Arif M, Opit G, Yerbafría A, Dobhal S, Li Z, Kucerova Z, Ochoa-Corona FM (2015) Array of synthetic oligonucleotides to generate unique multi target artificial positive control and molecular probes based discrimination of Liposcelis species. PLoS ONE, 10(6), e0129810; click here
Arif M, Zaidi NW, Haq QMR, Singh YP, Taj G, Kar CS, Singh US (2015) Morphological and comparative genomic analysis of pathogenic and non-pathogenic Fusarium solani isolated from Dalbergia sissoo. Mol Biol Rep, 42 (6), 1107-1122; click here
Dobhal S, Arif M, Olsen J, Mendoza-Yerbafría A, Aguilar-Moreno GS, Perez-Garcia M, Ochoa-Corona FM (2015) Sensitive detection and discrimination method for studying multiple infections of five major plant viruses infecting ornamental plants in nursery environments. Ann Appl Biol, 166, 286-296; click here
Rayar JK, Arif M, Singh US (2015) Relative efficiency of RAPD and ISSR markers in assessment of DNA polymorphism and genetic diversity among Pseudomonas strains. Afr J Biotech, 14 (13), 1096-1106
Arif M, Opit G, Yerbafría A, Dobhal S, Li Z, Kucerova Z, Ochoa-Corona FM (2015) Array of synthetic oligonucleotides to generate unique multi target artificial positive control and molecular probes based discrimination of Liposcelis species. PLoS ONE, 10(6), e0129810; click here
Arif M, Zaidi NW, Haq QMR, Singh YP, Taj G, Kar CS, Singh US (2015) Morphological and comparative genomic analysis of pathogenic and non-pathogenic Fusarium solani isolated from Dalbergia sissoo. Mol Biol Rep, 42 (6), 1107-1122; click here
Dobhal S, Arif M, Olsen J, Mendoza-Yerbafría A, Aguilar-Moreno GS, Perez-Garcia M, Ochoa-Corona FM (2015) Sensitive detection and discrimination method for studying multiple infections of five major plant viruses infecting ornamental plants in nursery environments. Ann Appl Biol, 166, 286-296; click here
Rayar JK, Arif M, Singh US (2015) Relative efficiency of RAPD and ISSR markers in assessment of DNA polymorphism and genetic diversity among Pseudomonas strains. Afr J Biotech, 14 (13), 1096-1106
2014
Arif M, Aguilar-Moreno GS, Wayadande A, Fletcher J, Ochoa-Corona FM (2014) Primer modification improves rapid and sensitive in vitro and field deployable assays for detection of High plains virus variants. Appl Environ Microbiol, 80 (1), 320-327; click here
Arif M, Dobhal S, Garrido PA, Orquera GK, Epindola A, Young CA, Ochoa-Corona FM, Marek SM, Garzon CD (2014) Highly sensitive end-point PCR and SYBR Green qPCR detection of Phymatotrichopsis omnivora, causal fungus of cotton root rot. Plant Dis, 98 (9), 1205-1212; click here
Arif M, Aguilar-Moreno GS, Wayadande A, Fletcher J, Ochoa-Corona FM (2014) Primer modification improves rapid and sensitive in vitro and field deployable assays for detection of High plains virus variants. Appl Environ Microbiol, 80 (1), 320-327; click here
Arif M, Dobhal S, Garrido PA, Orquera GK, Epindola A, Young CA, Ochoa-Corona FM, Marek SM, Garzon CD (2014) Highly sensitive end-point PCR and SYBR Green qPCR detection of Phymatotrichopsis omnivora, causal fungus of cotton root rot. Plant Dis, 98 (9), 1205-1212; click here
2013
*Ouyang P, *Arif M, Fletcher J, Melcher U, Ochoa-Corona FM (2013) Enhanced reliability and accuracy for field deployable bioforensic detection and discrimination of Xylella fastidiosa subsp. pauca, causal agent of citrus variegated chlorosis using Razor Ex technology and TaqMan quantitative PCR. PLoS ONE, 8 (11), e81647 *Both authors contributed equally; click here
Arif M, Zaidi NW, Haq QMR, Singh YP, Khan S, Singh US (2013) Molecular phylogeny and pathotyping of Fusarium solani: a causal agent of Dalbergia sissoo decline. Forest Pathol, 43 (6), 478–487; click here
Arif M, Fletcher J, Marek S, Melcher U, Ochoa-Corona FM (2013) Development of a rapid, sensitive and field deployable Razor Ex BioDetection System and qPCR assay for detection of Phymatotrichopsis omnivora using multiple gene targets. Appl Environ Microbiol, 79 (7), 2312-2320; click here
Arif M, Ochoa-Corona FM (2013) Comparative assessment of 5’ A/T-rich overhang sequences with optimal and sub-optimal primers to increase PCR yields and sensitivity. Mol Biotechnol, 55 (1), 17-26; click here
Cassi DRJ, Arif M, Payton M, Melcher U, Winder L, Ochoa-Corona FM (2013) A multi-target, non-infectious and clonable artificial positive control for routine PCR-based assays. J Microbiol Methods, 95 (2), 229-234; click here
*Ouyang P, *Arif M, Fletcher J, Melcher U, Ochoa-Corona FM (2013) Enhanced reliability and accuracy for field deployable bioforensic detection and discrimination of Xylella fastidiosa subsp. pauca, causal agent of citrus variegated chlorosis using Razor Ex technology and TaqMan quantitative PCR. PLoS ONE, 8 (11), e81647 *Both authors contributed equally; click here
Arif M, Zaidi NW, Haq QMR, Singh YP, Khan S, Singh US (2013) Molecular phylogeny and pathotyping of Fusarium solani: a causal agent of Dalbergia sissoo decline. Forest Pathol, 43 (6), 478–487; click here
Arif M, Fletcher J, Marek S, Melcher U, Ochoa-Corona FM (2013) Development of a rapid, sensitive and field deployable Razor Ex BioDetection System and qPCR assay for detection of Phymatotrichopsis omnivora using multiple gene targets. Appl Environ Microbiol, 79 (7), 2312-2320; click here
Arif M, Ochoa-Corona FM (2013) Comparative assessment of 5’ A/T-rich overhang sequences with optimal and sub-optimal primers to increase PCR yields and sensitivity. Mol Biotechnol, 55 (1), 17-26; click here
Cassi DRJ, Arif M, Payton M, Melcher U, Winder L, Ochoa-Corona FM (2013) A multi-target, non-infectious and clonable artificial positive control for routine PCR-based assays. J Microbiol Methods, 95 (2), 229-234; click here
2012
Arif M, Ochoa-Corona FM, Opit G, Li ZH, Kučerová Z, Stejskal V, Yang QQ (2012) PCR and isothermal-based molecular identification of the stored-product psocid pest Lepinotus reticulatus (Psocoptera: Trogiidae). J Stored Prod Res, 49, 184-188; click here
Arif M, Chawla S, Zaidi NW, Rayar JK, Variar M, Singh US (2012) Development of specific primers for genus Fusarium and F. solani using rDNA sub-unit and transcription elongation factor (TEF-1α) gene. Afr J Biotech, 11 (2), 444-447
Arif M, Ochoa-Corona FM, Opit G, Li ZH, Kučerová Z, Stejskal V, Yang QQ (2012) PCR and isothermal-based molecular identification of the stored-product psocid pest Lepinotus reticulatus (Psocoptera: Trogiidae). J Stored Prod Res, 49, 184-188; click here
Arif M, Chawla S, Zaidi NW, Rayar JK, Variar M, Singh US (2012) Development of specific primers for genus Fusarium and F. solani using rDNA sub-unit and transcription elongation factor (TEF-1α) gene. Afr J Biotech, 11 (2), 444-447