Relevant bibliographies by topics / Computer simulated RFLP; AluI

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Academic literature on the topic 'Computer simulated RFLP; AluI'

Author: Grafiati
Published: 3 June 2025
Last updated: 31 July 2025

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Journal articles on the topic "Computer simulated RFLP; AluI"

1

Monica, Modesto, Michelini Samanta, Perpetuini Giorgia, Tofalo Rosanna, Andlid Thomas, and Mattarelli Paola. "In silico RFLP Analysis of 16S rRNA Genes: A Helpful Application for Distinguishing Bifidobacteria from Human and Animal Source." Microbiology Research Journal International 20, no. 3 (2017): 1–13. https://doi.org/10.9734/MRJI/2017/33869.

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Bifidobacterial species are widespread in gastrointestinal tracts of mammalian and other animals; they can be found in extra body environment only after a fecal contamination or human intentional addition (as the case of probiotics). Interestingly their occurrence is strictly linked to their hosts with a clear demarcation between animal and human species. PCR-restriction fragment length polymorphism (PCR-RFLP) on the 16S rRNA gene, using <em>Alul</em>, and <em>TaqI </em>restriction enzymes, have been utilized to distinguish the animal or human source of 64 strains belonging to 13 <em>Bifidobac
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2

Lee, I. M., K. D. Bottner, and M. Sun. "An Emerging Potato Purple Top Disease Associated with a New 16SrIII Group Phytoplasma in Montana." Plant Disease 93, no. 9 (2009): 970. http://dx.doi.org/10.1094/pdis-93-9-0970b.

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Potato purple top (PPT) is a devastating disease that occurs in the United States, Canada, Mexico, Russia, and elsewhere causing great economic loss to the potato industry through substantially reduced tuber yield and quality. Chips and fries processed from infected tubers often develop brown discoloration, greatly reducing their marketability. At least seven distinct phytoplasma strains belonging to five different phytoplasma groups (16SrI, 16SrII, 16SrVI, 16SrXII, and 16SrXVIII) have been reported to cause purple top and related symptoms in potato (3). During an unusual drought in 2007, a ne
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3

Wei, Wei, Robert E. Davis, Ing-Ming Lee, and Yan Zhao. "Computer-simulated RFLP analysis of 16S rRNA genes: identification of ten new phytoplasma groups." International Journal of Systematic and Evolutionary Microbiology 57, no. 8 (2007): 1855–67. http://dx.doi.org/10.1099/ijs.0.65000-0.

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Phytoplasmas are cell wall-less bacteria that cause numerous plant diseases. As no phytoplasma has been cultured in cell-free medium, phytoplasmas cannot be differentiated and classified by the traditional methods which are applied to culturable prokaryotes. Over the past decade, the establishment of a phytoplasma classification scheme based on 16S rRNA restriction fragment length polymorphism (RFLP) patterns has enabled the accurate and reliable identification and classification of a wide range of phytoplasmas. In the present study, we expanded this classification scheme through the use of co
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4

Blaiotta, Giuseppe, Vincenzina Fusco, Danilo Ercolini, Maria Aponte, Olimpia Pepe, and Francesco Villani. "Lactobacillus Strain Diversity Based on Partial hsp60 Gene Sequences and Design of PCR-Restriction Fragment Length Polymorphism Assays for Species Identification and Differentiation." Applied and Environmental Microbiology 74, no. 1 (2007): 208–15. http://dx.doi.org/10.1128/aem.01711-07.

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ABSTRACT A phylogenetic tree showing diversities among 116 partial (499-bp) Lactobacillus hsp60 (groEL, encoding a 60-kDa heat shock protein) nucleotide sequences was obtained and compared to those previously described for 16S rRNA and tuf gene sequences. The topology of the tree produced in this study showed a Lactobacillus species distribution similar, but not identical, to those previously reported. However, according to the most recent systematic studies, a clear differentiation of 43 single-species clusters was detected/identified among the sequences analyzed. The slightly higher variabil
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Amaral Mello, Ana Paula de Oliveira, Bárbara Eckstein, Daniela Flores, Patrícia Fabretti Kreyci, and Ivan Paulo Bedendo. "Identification by computer-simulated RFLP of phytoplasmas associated with eggplant giant calyx representative of two subgroups, a lineage of 16SrIII-J and the new subgroup 16SrIII-U." International Journal of Systematic and Evolutionary Microbiology 61, no. 6 (2011): 1454–61. http://dx.doi.org/10.1099/ijs.0.019141-0.

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Symptoms resembling giant calyx, a graft-transmissible disease, were observed on 1–5 % of eggplant (aubergine; Solanum melongena L.) plants in production fields in Sao Paulo state, Brazil. Phytoplasmas were detected in 12 of 12 samples from symptomatic plants that were analysed by a nested PCR assay employing 16S rRNA gene primers R16mF2/R16mR1 followed by R16F2n/R16R2. RFLP analysis of the resulting rRNA gene products (1.2 kb) indicated that all plants contained similar phytoplasmas, each closely resembling strains previously classified as members of RFLP group 16SrIII (X-disease group). Virt
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USTA, Mustafa, Abdullah GÜLLER, and Hikmet Murat SİPAHİOĞLU. "First Report of ‘Candidatus Phytoplasma australasia’ Strain Related to Witches’-Broom of Tomato in Türkiye." Yüzüncü Yıl Üniversitesi Tarım Bilimleri Dergisi 33, no. 1 (2023): 54–63. http://dx.doi.org/10.29133/yyutbd.1205091.

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Phytoplasmas are dangerous bacteria severely infecting agricultural production worldwide. In the present study, the identification of phytoplasmas infecting tomato plants showing symptoms such as small leaves, flower abnormalities, stunting, witches' broom, and reddening was performed. Five plants, two symptomatic and three asymptomatic, were tested to verify phytoplasma infection. Total DNA isolated from 5 leaf samples was used as a template for PCR reactions. The phytoplasma agents were confirmed in the two symptomatic samples. BLASTn search of 16S rRNA of two sequences shared identity simil
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7

Braker, Gesche, Héctor L. Ayala-del-Rı́o, Allan H. Devol, Andreas Fesefeldt, and James M. Tiedje. "Community Structure of Denitrifiers, Bacteria, and Archaea along Redox Gradients in Pacific Northwest Marine Sediments by Terminal Restriction Fragment Length Polymorphism Analysis of Amplified Nitrite Reductase (nirS) and 16S rRNA Genes." Applied and Environmental Microbiology 67, no. 4 (2001): 1893–901. http://dx.doi.org/10.1128/aem.67.4.1893-1901.2001.

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ABSTRACT Steep vertical gradients of oxidants (O2 and NO3 −) in Puget Sound and Washington continental margin sediments indicate that aerobic respiration and denitrification occur within the top few millimeters to centimeters. To systematically explore the underlying communities of denitrifiers,Bacteria, and Archaea along redox gradients at distant geographic locations, nitrite reductase (nirS) genes and bacterial and archaeal 16S rRNA genes (rDNAs) were PCR amplified and analyzed by terminal restriction fragment length polymorphism (T-RFLP) analysis. The suitablility of T-RFLP analysis for in
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8

ÇİFTÇİ, Osman, Deniz ÇAPLIK, Şahimerdan TÜRKÖLMEZ, Feyzullah YILMAZ, and Behzat GÜLER. "Current Status of Phytoplasma Diseases in the Vineyards of Eastern and Southeastern Anatolia Regions." Dicle Üniversitesi Fen Bilimleri Enstitüsü Dergisi 11, no. 2 (2022): 1. http://dx.doi.org/10.55007/dufed.1102809.

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Surveys were carried out between 2013-2021 to determine the status of phytoplasma agents in the vineyard areas of Adıyaman, Batman, Elazığ, Malatya, Mardin, Şanlıurfa and Diyarbakır provinces located in the Eastern and Southeastern Anatolia Regions. As a result of the surveys carried out according to the guided sampling method, a total of 1110 plant samples were collected. Rapid diagnosis of the collected samples was performed by Real Time Polymerase Chain Reaction (qPCR) analysis to determine the presence of the associated phytoplasma. Based on qPCR analysis, phytoplasma was detected in 2 sam
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9

Melo, Luciano de Aquino, José Aires Ventura, Hélcio Costa, Elliot Watanabe Kitajima, Jacson Ferreira, and Ivan Paulo Bedendo. "Delineation of a novel subgroup 16SrXIII-J phytoplasma, a ‘Candidatus Phytoplasma hispanicum’-related strain, based on computer-simulated RFLP and phylogenetic analysis." International Journal of Systematic and Evolutionary Microbiology 68, no. 3 (2018): 962–66. http://dx.doi.org/10.1099/ijsem.0.002547.

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10

Wang, J. W., D. Z. Zhu, Q. Z. Liu, R. E. Davis, and Y. Zhao. "First Report of Sweet Cherry Virescence Disease in China and Its Association with Infection by a ‘Candidatus Phytoplasma ziziphi’-Related Strain." Plant Disease 98, no. 3 (2014): 419. http://dx.doi.org/10.1094/pdis-07-13-0787-pdn.

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Sweet cherry (Prunus avium L.) is a deciduous tree originating in the Black Sea/Caspian Sea region where Asia and Europe converge. Being highly valued for its timber and fruit, sweet cherry has been cultivated and naturalized on all continents. Over the past decade, the area of sweet cherry cultivation increased rapidly in China and has reached 140,000 ha. In April 2013, sweet cherry trees (cv. Summit) exhibiting floral virescence symptoms were observed in two orchards located in suburban Taian, Shandong Province, China. The diseased trees developed flowers having white petals with green veins
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