scholarly journals A Pseudomonas syringae Diversity Survey Reveals a Differentiated Phylotype of the Pathovar syringae Associated with the Mango Host and Mangotoxin Production

2013 ◽  
Vol 103 (11) ◽  
pp. 1115-1129 ◽  
Author(s):  
José A. Gutiérrez-Barranquero ◽  
Víctor J. Carrión ◽  
Jesús Murillo ◽  
Eva Arrebola ◽  
Dawn L. Arnold ◽  
...  
Keyword(s):  
Pseudomonas Syringae ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Catabolic Diversity ◽  
Rapd Pcr ◽  
Geographical Regions ◽  
Extensive Collection ◽  
Polymerase Chain ◽  
Apical Necrosis ◽  
Dna Pcr

Pseudomonas syringae pv. syringae, the causal agent of bacterial apical necrosis (BAN) in mango crops, has been isolated in different mango-producing areas worldwide. An extensive collection of 87 P. syringae pv. syringae strains isolated from mango trees affected by BAN from different countries, but mainly from Southern Spain, were initially examined by repetitive sequence-based polymerase chain reaction (rep-PCR) to analyze the genetic diversity with an epidemiological aim. rep-PCR was powerful in assessing intrapathovar distribution and also allowing clustering of the P. syringae pv. syringae strains isolated from mango, depending on the isolation area. A clear pattern of clustering was observed for all the P. syringae pv. syringae strains isolated from mango distinct from strains from other hosts, including strains for the same geographical regions as the mango isolates. For this reason, a representative group of 51 P. syringae pv. syringae strains isolated from mango and other hosts, as well as some P. syringae strains from other pathovars, were further characterized to determine their possible genetic, phenotypic, and phylogenetic relationships. Similar to the rep-PCR results, the randomly amplified polymorphic DNA PCR (RAPD-PCR) and catabolic diversity analysis using the Biolog GN2 profile grouped 90% of the mango isolates together in a unique cluster. Interestingly, the majority of P. syringae pv. syringae strains isolated from mango produced mangotoxin. The analysis of the phylogenetic distribution using the multilocus sequence typing analysis strongly supports the existence of a differentiated phylotype of the pathovar syringae mainly associated with the mango host and characterized by the mangotoxin production.

scholarly journals Molecular typing of bacteria of the genus Asaia in malaria vector Anopheles arabiensis Patton, 1905

2012 ◽  
Vol 44 (2) ◽  
pp. 7 ◽  
Author(s):  
S. Epis ◽  
M. Montagna ◽  
F. Comandatore ◽  
C. Damiani ◽  
A. Diabaté ◽  
...  
Keyword(s):  
Molecular Typing ◽  
Internal Transcribed Spacer ◽  
Anopheles Arabiensis ◽  
Acetic Acid Bacterium ◽  
Sub Saharan Africa ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Polymerase Chain ◽  
Sub Saharan ◽  
Dna Pcr

The acetic acid bacterium <em>Asaia</em> spp. was successfully detected in <em>Anopheles arabiensis</em> Patton, 1905, one of the major vector of human malaria in Sub-Saharan Africa. A collection of 45 <em>Asaia</em> isolates in cellfree media was established from 20 individuals collected from the field in Burkina Faso. 16S rRNA universal polymerase chain reaction (PCR) and specific qPCR, for the detection of <em>Asaia</em> spp. were performed in order to reveal the presence of different bacterial taxa associated with this insect. The isolates were typed by internal transcribed spacer-PCR, BOX-PCR, and randomly amplified polymorphic DNA-PCR, proved the presence of different <em>Asaia</em> in <em>A. arabiensis</em>.

Genetic diversity among microsporidian isolates from the silkworm, Bombyx mori, as revealed by randomly amplified polymorphic DNA (RAPD) markers

2011 ◽  
Vol 56 (4) ◽  
Author(s):  
B. Surendra Nath ◽  
W. Hassan ◽  
S. Nageswara Rao ◽  
N. Vijaya Prakash ◽  
S. Gupta ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Type Species ◽  
Rapd Markers ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Rapd Pcr ◽  
Random Amplification ◽  
Major Cluster ◽  
Sources Of Infection ◽  
Polymerase Chain

AbstractRandom amplification of polymorphic DNA polymerase chain reaction (RAPD-PCR) was carried out to assess the genetic diversity of five new microsporidian isolates viz., NIWB-11bp, NIWB-12n, NIWB-13md, NIWB-14b and NIWB-15mb identified from the silkworms. A type species, NIK-1s_mys was used as control for comparison. Differences in the spore shape, length and width were observed. Of the 30 decamer random primers tested, 22 primers gave repeatable RAPD profiles and yielded a total of 143 fragments, of which 78 were polymorphic (55%). The resulting data was used to derive genetic similarity values for constructing a dendrogram. The neighbour joining method based on Dice coefficients indicate a major cluster comprising NIK-1s_mys, NIWB-11bp and NIWB-12n, whereas NIWB-13md, NIWB-14b and NIWB-15mb appear to be different from each other as well from the major cluster mentioned above which includes the type species (NIK-1s_mys). Based on the reproducibility of RAPD profiles, we are able to identify these microsporidians as different isolates. The RAPD technique may be useful in detecting sources of infection of this economically important domestic insect.

scholarly journals Phylogenetic Analysis of Culex tritaeniorhynchus and Culex vishnui Vector of Japanese Encephalitis Virus

2019 ◽  
Vol 7 (3) ◽  
Author(s):  
Raden Roro Upiek Ngesti Wibawaning Astuti ◽  
Raden Wisnu Nurcahyo ◽  
R.C. Hidayat Soesilohadi ◽  
Suwarno Hadisusanto ◽  
Budi Mulyaningsih
Keyword(s):  
Polymerase Chain Reaction ◽  
Japanese Encephalitis ◽  
Genetic Similarity ◽  
Pcr Amplification ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Human Bite ◽  
Culex Tritaeniorhynchus ◽  
Polymerase Chain ◽  
Dna Pcr

Culex tritaeniorhynchus and Culex vishnui are medically essential mosquitoes that transmit the Japanese encephalitis (JE) virus. There is less information about the recording data and research due to genetic character differences among them. The objective of this study was to examine the genetic variation of Cx. tritaeniorhynchus and Cx. vishnui in 3 sites of Central Java using polymerase chain reaction randomly amplified polymorphic DNA (PCR-RAPD). The study was done in January to November 2017 in Pekalongan city, Pekalongan regency, and Semarang regency. Adult female mosquitoes collected by human bite method. DNA of ten Cx. tritaeniorhynchus samples and fifteen samples of Cx. vishnui purified using DNA extraction kit. Furthermore, PCR amplification was conducted with 5 RAPD primers (OPA 11, 12, 15, 16, and 20) and would run into 2% gel electrophoresis for 45 minutes. Cluster analysis was using MVSPTM software (version 3.1). The results showed 213 genetic characters of Cx. vishnui, while 142 characters shown by Cx. tritaeniorhynchus. The dendrograms showed three distinct groups of Cx. vishnui from 2 sites of Pekalongan and one site of Semarang, while Cx. tritaeniorhynchus showed two distinct groups, which were 1 group from Pekalongan and 1 group from Semarang. Low genetic similarity (<10%) shown Cx. vishnui from Pekalongan city and Pekalongan district, and there was no genetic similarity in Cx. tritaeniorhynchus from Pekalongan and Semarang. It concluded that the polymorphism of Cx. tritaeniorhynchus and Cx. vishnui reached 100%. ANALISIS FILOGENETIK CULEX TRITAENIORHYNCHUS DAN CULEX VISHNUI VEKTOR VIRUS JAPANESE ENCEPHALITISNyamuk Culex tritaeniorhynchus dan Culex vishnui memiliki peran penting di bidang medis terutama dalam penularan virus Japanese  encephalitis (JE). Sampai saat ini data dan riset tentang karakter genetik vektor JE masih sangat terbatas. Penelitian ini bertujuan menjelaskan variasi genetik Cx. tritaeniorhynchus dan Cx. vishnui di 3 lokasi di Jawa Tengah berdasar polymerase chain reaction randomly amplified polymorphic DNA (PCR-RAPD). Studi ini dilakukan dari bulan Januari sampai November 2017 di Kota Pekalongan, Kabupaten Pekalongan, dan Kabupaten Semarang. Metode human bite digunakan untuk koleksi nyamuk. Ekstraksi DNA nyamuk dilakukan pada 10 ekor Cx. tritaeniorhynchus dan 15 ekor Cx. vishnui menggunakan kit ekstraksi DNA. Selanjutnya, diamplifikasi dengan 5 macam primer RAPD (OPA 11, 12, 15, 16, dan 20), serta dielektroforesis pada 2% agar selama 45 menit. Analisis klaster dilakukan menggunakan program MVSPTM (versi 3.1). Ditemukan 213 dan 142 karakter genetik masing-masing pada Cx. vishnui dan Cx. tritaeniorhynchus. Analisis dendogram menunjukkan 3 grup yang berbeda untuk Cx. vishnui, sedangkan untuk Cx. tritaeniorhynchus terdapat 2 grup yang berbeda, yaitu 1 grup dari Pekalongan dan 1 grup dari Semarang. Similaritas genetik yang rendah (<10%) ditunjukkan Cx. vishnui dari Kota Pekalongan dan Kabupaten Pekalongan, bahkan tidak ada persamaan genetik pada Cx. tritaeniorhynchus dari Pekalongan dengan Semarang. Disimpulkan bahwa polimorfisme Cx. tritaeniorhynchus dan Cx. vishnui mencapai 100%.

scholarly journals Investigations on Transfer of Pathogens between Foster Cows and Calves during the Suckling Period

Animals ◽  
2021 ◽  
Vol 11 (9) ◽  
pp. 2738
Author(s):  
Katharina Köllmann ◽  
Nicole Wente ◽  
Yanchao Zhang ◽  
Volker Krömker
Keyword(s):  
Pasteurella Multocida ◽  
Dairy Farm ◽  
Mammary Glands ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Calf Health ◽  
Flight Mass Spectrometry ◽  
Rapd Pcr ◽  
Organic Dairy ◽  
Polymerase Chain

To date, there have been few studies on the health effects of foster cow systems, including the transmission of mastitis-associated pathogens during suckling. The present study aimed to compare the pathogens detected in the mammary glands of the foster cow with those in the oral cavities of the associated foster calves and to evaluate the resulting consequences for udder health, calf health and internal biosecurity. Quarter milk sampling of 99 foster cows from an organic dairy farm was conducted twice during the foster period. Oral cavity swabs were taken from 345 foster calves. Furthermore, quarter milk samples were collected from 124 biological dams to investigate possible transmission to the foster cows via the suckling calves. All samples were microbiologically examined and confirmed by MALDI-TOF (matrix-assisted laser desorption time-of-flight mass-spectrometry). Using RAPD-PCR (randomly amplified polymorphic DNA polymerase chain reaction), strain similarities were detected for Pasteurella multocida, Staphylococcus aureus, S. sciuri and Streptococcus (Sc.) suis. Transmission of P. multocida and S. aureus probably occurred during suckling. For S. sciuri and Sc. suis, environmental origins were assumed. Transmission from dam to foster cow with the suckling calf as vector could not be clearly demonstrated.

scholarly journals Characteristics of the Genetic Variation of a Swamp Buffalo (Bubalusbubalis) of South Sumatra Based on Polymerase Chain Reaction-Random Amplified Polymorphic DNA (PCR-RAPD)

2018 ◽  
Vol 68 ◽  
pp. 01002
Author(s):  
Yuanita Windusari ◽  
Laila Hanum ◽  
Arum Setiawan ◽  
Veronika Larasati
Keyword(s):  
Genetic Variation ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Approach ◽  
Chain Reaction ◽  
Rapd Pcr ◽  
Polymerase Chain ◽  
Polymorphic Bands ◽  
Swamp Buffalo ◽  
Dna Pcr ◽  
Cluster 2

Swamp buffalo (Bubalusbubalis) is one of the endemic species that become a wealth of genetic resources of South Sumatra. This study aims to the genetic variation and relationships of kinship 6 variants of swamp buffalo South Sumatera. The methods used by the molecular approach using RAPD-PCR primer 5 i.e. ILO 1204, ILO 1212, ILO 525, OPW 03 and OPY 13. Data was analyzed using SPSS ver 16.0 and presented in dendrogram. The results of the amplification, all primary produce band with a total of 63 band of DNA (14.92%) with an average of every primary produce 12.6 band of DNA. The most primary produce DNA polymorphic bands namely OPW 03 (23.81%) and ILO 1204 (20.63%), while the primary ILO 525 (0.00%) do not generate polymorphic bands. Genetic variation of swamp buffalo has a low genetic variation with 14.92% percentage it generated polymorphic bands. The results of the dendogram obtained two clusters namely cluster 1 included Kerbau Tanduk Bulat, Kerbau Tanduk Langit, Kerbau Tanduk Melintang and Kerbau Tanduk Dungkul, while the cluster 2 of them Kerbau Bule and Kerbau Rebah Belakang. Swamp buffalo variants that have the closest genetic distance. Kerbau Tanduk Langit and Kerbau Tanduk Bulat with 856 coefficient similarity, while the farthest Kerbau Tanduk Langit and Kerbau Bule with the coefficient similarity -972. Swamp buffalo (Bubalusbubalis) of South Sumatera, which consists of 6 variants of buffalo have low genetic variation and inbreeding of closekinship.

scholarly journals Genetic diversity analysis of endemic species, Garcinia cambogia Gaertn using randomly amplified Polymorphic DNA markers

2017 ◽  
Vol 7 ◽  
Author(s):  
Santosh P ◽  
Suresh B. Arakera
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna ◽  
Consumer Preference ◽  
Randomly Amplified Polymorphic Dna ◽  
Chain Reaction ◽  
Garcinia Cambogia ◽  
Polymerase Chain ◽  
Polymorphic Bands ◽  
Dna Pcr

<p><strong>Polymerase chain reaction based random amplified polymorphic DNA (PCR-RAPD) markers were employed to assess genetic diversity in eight <em>Garcinia  cambogia</em>  genotypes. Among the 20 random primers used in the present investigation, 9 primers showed polymorphism. A total number of 227 bands were obtained from 9 primers, out of which 225 were polymorphic, showing 99.11% polymorphism. An average of 25.22 bands per primer was scored and average number of polymorphic bands found to be 25. The eight accessions fall into two major clusters. Cluster analysis showed that the red and yellow accessions cannot be regarded as two different varieties. The use of red and yellow fruits for commercial and medicinal purposes, respectively, is purely based on consumer preference. </strong></p>

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