Molecular identification and genetic diversity among Photorhabdus and Xenorhabdus isolates

Moghaieb, Reda E. A.; Abdelhadi, Abdelhadi A.; El-Sadawy, Hanan A.; Allam, Nesreen A. T.; Baiome, Baiome Abdelmaguid; Soliman, Mohamed H.

doi:10.1007/s13205-016-0594-4

Cited by 10 publications

(9 citation statements)

References 31 publications

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“…The predicted GC content of H. guilliermondii UTAD222 is ∼31%, also in line with the percentages reported for other Hanseniaspora species (34.7% for H. opuntiae and 31.6% for H. uvarum ) and for S. cerevisiae strains (38%). Prior karyotyping of H. guilliermondii wine strains from different geographical origins suggested that that this species is equipped with seven chromosomes, the same number that was attributed to most H. uvarum strains 35 , 51 , 52 . In line with these results, karyotyping of the UTAD222 strain also revealed seven chromosomal bands (Supplementary Fig.…”

Section: Resultssupporting

confidence: 62%

Genome sequence of the non-conventional wine yeastHanseniaspora guilliermondiiUTAD222 unveils relevant traits of this species and of theHanseniasporagenus in the context of wine fermentation

et al. 2018

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Hanseanispora species, including H. guilliermondii, are long known to be abundant in wine grape-musts and to play a critical role in vinification by modulating, among other aspects, the wine sensory profile. Despite this, the genetics and physiology of Hanseniaspora species remains poorly understood. The first genomic sequence of a H. guilliermondii strain (UTAD222) and the discussion of its potential significance are presented in this work. Metabolic reconstruction revealed that H. guilliermondii is not equipped with a functional gluconeogenesis or glyoxylate cycle, nor does it harbours key enzymes for glycerol or galactose catabolism or for biosynthesis of biotin and thiamine. Also, no fructose-specific transporter could also be predicted from the analysis of H. guilliermondii genome leaving open the mechanisms underlying the fructophilic character of this yeast. Comparative analysis involving H. guilliermondii, H. uvarum, H. opuntiae and S. cerevisiae revealed 14 H. guilliermondii-specific genes (including five viral proteins and one β-glucosidase). Furthermore, 870 proteins were only found within the Hanseniaspora proteomes including several β-glucosidases and decarboxylases required for catabolism of biogenic amines. The release of H. guilliermondii genomic sequence and the comparative genomics/proteomics analyses performed, is expected to accelerate research focused on Hanseniaspora species and to broaden their application in the wine industry and in other bio-industries in which they could be explored as cell factories.

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Section: Resultssupporting

confidence: 62%

Genome sequence of the non-conventional wine yeastHanseniaspora guilliermondiiUTAD222 unveils relevant traits of this species and of theHanseniasporagenus in the context of wine fermentation

et al. 2018

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“…It has also been reported that applications of various markers generate the information which provides better understanding to the researches to distinguish the population diversity and their genetic relationships (Velasco-Ramírez et al 2014) and therefore, the combination of different markers based system is valuable to study the genetic diversity (Cho et al 2001;Velasco-Ramírez et al 2014;Costa et al 2016). Further, using RAPD, SRAP and ISSR molecular markers genetic diversity among the isolates of Photorhabdus and Xenorhabdus was studied and the results were found more substantiation and precise for the characterization of these strains because bacterial strained were distinguished with these markers (Moghaieb et al 2017) which are the supportive towards our ndings. The results of our study demonstrated that combined application of these three different molecular markers distinguished and characterized the isolates with precisely and positively depending upon the virulence and geographical distribution of isolates.…”

Section: Discussionsupporting

confidence: 67%

Marker based monitoring for virulence distribution of Pseudomonas syringae pv. tomato causing bacterial speck diseased of tomato in Egypt

El-Fatah

Abo-Elyousr

Mahmoud

et al. 2022

Preprint

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The bacterial pathogen Pseudomonas syringae pv. tomato is the most important pathogen causing bacterial speck disease of tomato. Present study was conducted to investigate and characterize the population diversity of Pseudomonas syringae pv. tomato pathogen collected from infected tomato growing regions of Egypt. Significant variation was observed among the five isolates which showed significant level of virulence. Genetic variation among the isolates was investigated by PCR approach for the amplification of hrpZ gene using random amplified polymorphic DNA (RLFP), sequence-related amplified polymorphism (SRAP), and inters simple sequence repeats (ISSR). The length of amplified product for ITS1 region was 810 bp whereas for hrpZ gene was 536bp with primer pairs (1406-f/23S-r) and (MM5-F, MM5-R) respectively. The restriction analysis of amplified regions “ITS” and hrpZ by using 5 and 4 endonucleases respectively, showed slight variation among the bacterial isolates. The results of RAPD, ISSR and SRAP showed higher polymorphism (60.52%) between the isolates which assist for their successful characterization by unique and specific positive markers, based on geographical distribution, origin and virulence intensity. The results of this study suggested that the use of molecular approach can provide successful and valuable information for differentiation and classification of Pseudomonas syringae pv. tomato in future.

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“…RAPD and ISSR are PCR-based markers, require only small amounts of DNA sample without involving radioactive labels, and are simpler as well as faster. RAPD has proven to be quite efficient in detecting genetic variations and used for diversity assessment as well as identifying germplasm in several plant species, bacteria, and microorganism (Kapteyn et al 2002;Moghaieb et al 2017). RAPDs are very quick and easy to develop due to the arbitrary sequence of the primers.…”

Section: Introductionmentioning

confidence: 99%

RAPD and ISSR marker assessment of genetic diversity in Citrullus colocynthis (L.) Schrad: a unique source of germplasm highly adapted to drought and high-temperature stress

et al. 2017

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(L.) Schrad. (Cucurbitaceae) shows high levels of variation in fruit color, fruit stripe pattern, seed coat color, and size. Thirty-eight accessions of plants from different parts of semi-arid Rajasthan were collected and genetic diversity was assessed using random-amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR) markers. Out of 65 RAPD decamer primers, 50 primers produced 549 scorable bands of which 318 were polymorphic. Polymorphic banding patterns with the number of amplified fragments varied from 5 (OPA-08 and OPF-9) to 19 (OPT-20) in the molecular size range of 150-6000 bp. Percent polymorphism ranged from 22.2% (OPA-09) to 83.3% (OPE-12) with 55.14% polymorphism. Out of the 20 ISSR primers screened, 13 primers produced 166 amplification products, of which 99 were polymorphic. The number of bands amplified per primer varied between 9 (UBC-807, 802) and 16 (UBC-803, 812) with average band size between 250 and 4000 bp. Percent polymorphism ranged from 45.4% (UBC-815) to 73.3% (UBC-814) with 65.05% polymorphism. Dendrogram constructed on the basis of RAPD + ISSR polymorphism separated the accessions into four distinct clusters at 72% variation with Jaccard's similarity coefficient ranging from minimum 0.64 to 0.95. The matrices for RAPD and ISSR were also compared using Mantel's test and obtained correlation value ( = 0.7947). Discriminating power of RAPD and ISSR markers was assessed by calculating polymorphic information content, multiplex ratio, marker index, and resolving power. Approx. 50% RAPD and ISSR markers showed PIC value and heterozygosity () ≥ 0.50, indicating marker as informative. The primers that showed higher polymorphism had higher RP, MR, and MI values.

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Molecular identification and genetic diversity among Photorhabdus and Xenorhabdus isolates

Cited by 10 publications

References 31 publications

Genome sequence of the non-conventional wine yeastHanseniaspora guilliermondiiUTAD222 unveils relevant traits of this species and of theHanseniasporagenus in the context of wine fermentation

Genome sequence of the non-conventional wine yeastHanseniaspora guilliermondiiUTAD222 unveils relevant traits of this species and of theHanseniasporagenus in the context of wine fermentation

Marker based monitoring for virulence distribution of Pseudomonas syringae pv. tomato causing bacterial speck diseased of tomato in Egypt

RAPD and ISSR marker assessment of genetic diversity in Citrullus colocynthis (L.) Schrad: a unique source of germplasm highly adapted to drought and high-temperature stress

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