Assessment of genetic variation and identification of species-specific ISSR markers in five species of Cymbidium (Orchidaceae)

2012 ◽  
Vol 22 (2) ◽  
pp. 250-255 ◽  
Author(s):  
Santosh Kumar Sharma ◽  
Suman Kumaria ◽  
Pramod Tandon ◽  
Satyawada Rama Rao
Biologia ◽  
2015 ◽  
Vol 70 (9) ◽  
pp. 1159-1171
Author(s):  
Özay Hasan Evren ◽  
Ertuǧrul Yüzbaşıoǧlu ◽  
Mehmet Yaşar Dadandı

Abstract In this study, intra-specific genetic variation and inter-specific genetic relation were investigated among Phlomis oppositiflora, P. kurdica, P. × melitenense (P. kurdica × oppositiflora), P. capitata and P. kurdica × capitata by using RAPD and ISSR markers. The hybridity of P. × melitenense and P. kurdica × capitata samples was also surveyed in terms of morphological and molecular aspects. Except for two, all bands obtained from RAPD (707 bands) and ISSR (651 bands) analyses were polymorphic. The lowest genetic distance values obtained from RAPD and ISSR analyses were 0.0156 (between P. × melitenense and P. kurdica) and 0.0142 (between P. × melitenense and P. kurdica) respectively. The highest genetic distance values obtained from RAPD and ISSR analyses were 0.0866 (between P. kotschyana and P. oppositiflora) and 0.1237 (between P. kotschyana and P. kurdica × capitata) respectively. While P. kurdica indicated the highest genetic diversity (H = 0.1572; I = 0.2646) in RAPD analysis, P. capitata displayed the highest genetic diversity (H = 0.1403; I = 0.2329) in ISSR analysis. AMOVA results showed that 86% and 75% of the total variance resided within groups based on RAPD and ISSR markers, respectively. Based on the RAPD and ISSR results, both P. × melitenense and P. kurdica × capitata samples inherited species specific bands from their parental species, which confirms their hybridity. Although both P. × melitenense and P. kurdica × capitata hybrids showed a morphological mosaic between their parental phenotypes in terms of the majority of the quantitative characters examined, P. × melitenense and P. kurdica × capitata exceeded their parental phenotypes in terms of the three and 11 quantitative characters respectively. MANOVA results from the morphological data showed significant distinction among P. kurdica, P. oppositiflora, P. × melitenense, P. capitata and P. kurdica × capitata (Wilks’ Lambda = 0.003; df = 112; P < 0.01). Average pollen fertilities of P. oppositiflora, P. × melitenense, P. capitata, P. kurdica and P. kurdica × capitata were 93.44%, 68.42%, 93.28 %, 90.12% and 92.77% respectively.


Genome ◽  
2010 ◽  
Vol 53 (10) ◽  
pp. 769-777 ◽  
Author(s):  
Melanie Mehes-Smith ◽  
Paul Michael ◽  
Kabwe Nkongolo

Genome organization in the family Pinaceae is complex and largely unknown. The main purpose of the present study was to develop and physically map species-diagnostic and species-specific molecular markers in pine and spruce. Five RAPD (random amplified polymorphic DNA) and one ISSR (inter-simple sequence repeat) species-diagnostic or species-specific markers for Picea mariana , Picea rubens , Pinus strobus , or Pinus monticola were identified, cloned, and sequenced. In situ hybridization of these sequences to spruce and pine chromosomes showed the sequences to be present in high copy number and evenly distributed throughout the genome. The analysis of centromeric and telomeric regions revealed the absence of significant clustering of species-diagnostic and species-specific sequences in all the chromosomes of the four species studied. Both RAPD and ISSR markers showed similar patterns.


2005 ◽  
Vol 16 (3) ◽  
pp. 216-218 ◽  
Author(s):  
Li Hui-yu ◽  
Jiang Jing ◽  
Liu Gui-feng ◽  
Ma Xu-jun ◽  
Dong Jing-xiang ◽  
...  

Toxicon ◽  
1996 ◽  
Vol 34 (2) ◽  
pp. 158-159
Author(s):  
D. Catty ◽  
L.G.D. Heneine

Foods ◽  
2020 ◽  
Vol 9 (5) ◽  
pp. 622
Author(s):  
Sabrina Saltaji ◽  
Olivier Rué ◽  
Valérie Sopena ◽  
Sophie Sablé ◽  
Fatoumata Tambadou ◽  
...  

The undefined mixed starter culture (UMSC) is used in the manufacture of cheeses. Deciphering UMSC microbial diversity is important to optimize industrial processes. The UMSC was studied using culture-dependent and culture-independent based methods. MALDI-TOF MS enabled identification of species primarily from the Lactococcus genus. Comparisons of carbohydrate metabolism profiles allowed to discriminate five phenotypes of Lactococcus (n = 26/1616). The 16S sequences analysis (V1–V3, V3–V4 regions) clustered the UMSC microbial diversity into two Lactococcus operational taxonomic units (OTUs). These clustering results were improved with the DADA2 algorithm on the housekeeping purR sequences. Five L. lactis variants were detected among the UMSC. The whole-genome sequencing of six isolates allowed for the identification of the lactis subspecies using Illumina® (n = 5) and Pacbio® (n = 1) technologies. Kegg analysis confirmed the L. lactis species-specific niche adaptations and highlighted a progressive gene pseudogenization. Then, agar spot tests and agar well diffusion assays were used to assess UMSC antimicrobial activities. Of note, isolate supernatants (n = 34/1616) were shown to inhibit the growth of Salmonella ser. Typhimurium CIP 104115, Lactobacillus sakei CIP 104494, Staphylococcus aureus DSMZ 13661, Enterococcus faecalis CIP103015 and Listeria innocua CIP 80.11. Collectively, these results provide insightful information about UMSC L. lactis diversity and revealed a potential application as a bio-protective starter culture.


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