scholarly journals Genetic diversity and population structure of Pseudomonas savastanoi, an endemic pathogen of the Mediterranean area, revealed up to strain level by the MLVA assay

2020 ◽  
Vol 102 (4) ◽  
pp. 1051-1064
Author(s):  
Yaseen Jundi Rahi ◽  
Silvia Turco ◽  
Maria Claudia Taratufolo ◽  
Marta Tatì ◽  
Matteo Cerboneschi ◽  
...  
2017 ◽  
Vol 27 (4) ◽  
pp. 626-638 ◽  
Author(s):  
Duy Tin Truong ◽  
Adrian Tett ◽  
Edoardo Pasolli ◽  
Curtis Huttenhower ◽  
Nicola Segata

2017 ◽  
Vol 7 (18) ◽  
pp. 7231-7242 ◽  
Author(s):  
Ana Lázaro‐Nogal ◽  
Silvia Matesanz ◽  
Alfredo García‐Fernández ◽  
Anna Traveset ◽  
Fernando Valladares

Genes ◽  
2021 ◽  
Vol 12 (12) ◽  
pp. 2007
Author(s):  
A. S. M. Faridul Islam ◽  
Dean Sanders ◽  
Amit Kumar Mishra ◽  
Vijay Joshi

Olives are one of the most important fruit and woody oil trees cultivated in many parts of the world. Olive oil is a critical component of the Mediterranean diet due to its importance in heart health. Olives are believed to have been brought to the United States from the Mediterranean countries in the 18th century. Despite the increase in demand and production areas, only a few selected olive varieties are grown in most traditional or new growing regions in the US. By understanding the genetic background, new sources of genetic diversity can be incorporated into the olive breeding programs to develop regionally adapted varieties for the US market. This study aimed to explore the genetic diversity and population structure of 90 olive accessions from the USDA repository along with six popular varieties using genotyping-by-sequencing (GBS)-generated SNP markers. After quality filtering, 54,075 SNP markers were retained for the genetic diversity analysis. The average gene diversity (GD) and polymorphic information content (PIC) values of the SNPs were 0.244 and 0.206, respectively, indicating a moderate genetic diversity for the US olive germplasm evaluated in this study. The structure analysis showed that the USDA collection was distributed across seven subpopulations; 63% of the accessions were grouped into an identifiable subpopulation. The phylogenetic and principal coordinate analysis (PCoA) showed that the subpopulations did not align with the geographical origins or climatic zones. An analysis of the molecular variance revealed that the major genetic variation sources were within populations. These findings provide critical information for future olive breeding programs to select genetically distant parents and facilitate future gene identification using genome-wide association studies (GWAS) or a marker-assisted selection (MAS) to develop varieties suited to production in the US.


2006 ◽  
Vol 33 (2) ◽  
pp. 93-103 ◽  
Author(s):  
B. Abdennaji Guenounou ◽  
B. Yacoubi Loueslati ◽  
S. Buhler ◽  
S. Hmida ◽  
H. Ennafaa ◽  
...  

PLoS ONE ◽  
2016 ◽  
Vol 11 (2) ◽  
pp. e0149496 ◽  
Author(s):  
Daniele De Luca ◽  
Gaetano Catanese ◽  
Gabriele Procaccini ◽  
Graziano Fiorito

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Marie Drábková ◽  
Nikola Jachníková ◽  
Tomáš Tyml ◽  
Hana Sehadová ◽  
Oleg Ditrich ◽  
...  

Abstract Population structure and biogeography of marine organisms are formed by different drivers than in terrestrial organisms. Yet, very little information is available even for common marine organisms and even less for their associated parasites. Here we report the first analysis of population structure of both a cephalopod host (Sepia officinalis) and its dicyemid parasite, based on a homologous molecular marker (cytochrome oxidase I). We show that the population of common cuttlefish in the Mediterranean area is fragmented into subpopulations, with some areas featuring restricted level of gene flow. Amongst the studied areas, Sardinia was genetically the most diverse and Cyprus the most isolated. At a larger scale, across the Mediterranean, the population structure of the parasite shows co-diversification pattern with its host, but a slower rate of diversification. Differences between the two counterparts are more obvious at a finer scale, where parasite populations show increased level of fragmentation and lower local diversities. This discrepancy can be caused by local extinctions and replacements taking place more frequently in the dicyemid populations, due to their parasitic lifestyle.


2020 ◽  
Vol 52 (6) ◽  
Author(s):  
Anpei Zhou ◽  
Dan Zong ◽  
Peihua Gan ◽  
Yao Zhang ◽  
Dan Li ◽  
...  

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