Comparative genomics and pangenome-oriented studies reveal high homogeneity
Background: Dickeya solani is an important plant pathogenic bacteria that caused heavy losses in the production of potatoes in Europe. This species attracted much attention because of the virulence of extraordinary potential to destroy the large and spread more easily contrasted with other spp Dickeya. Given the high need for extensive studies on important economic soft rot Pectobacteriaceae, we perform comparative genomics analysis on the strain D. solani to search for the genetic foundation that would explain the difference in the level of virulence observed in D. solani population.
Results: High quality assemblies from 8 de novo genome sequencing D. solani has been obtained. Whole-sequence comparison, Anib, anim, Tetra and oriented pangenome analysis performed at the genome and sequences of 14 additional strains revealed a very high degree of homogeneity among the studied genetic material D. solani strains. By using 22 genomes, pangenome D. solani, which consists of a core of 84.7%, 7.2% and genes unique accessory 8.1%, has been almost completely determined, indicates the structure pangenome almost closed.
Attribution of genes included in D. solani pangenome fraction of COG functional categories shows that a higher percentage of unique accessories and pangenome different parts of the core part encountered in phage / mobile elements and transcription- groups associated with RNS genome 05.1.2A yeast strains have the most significant impact. Also, D. solani first large-scale genome-wide gene phylogeny calculated alignments core of this serial here reported.
Conclusion: The status almost closed D. solani pangenome achieved in this work points to the fact that the unique genes from these species should no longer growing. these features are characteristic of a good representative taxa occupy isolated ecological niches or lack of efficient mechanisms to exchange genes and recombination, which seems rational about strict pathogen species with clonal population structure. Finally, there is no clear correlation between the geographic origin of strains of D. solani and phylogeny they were found, which may reflect the peculiarities of the international potato seed market.
Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani
Comparative Genomics Identifies Genetic Locus in Plant-Associated Pseudomonas spp. It Is Necessary to Induced Systemic Vulnerabilities
Plant root-associated microbes promote plant growth and bring induced systemic resistance (ISR) to leaf pathogens. In an effort to find growth-promoting novel and ISR-inducing strains, we previously identified the root-associated strains of Pseudomonas spp. which promote plant growth but suddenly raises induction of systemic vulnerability (ISS) than the ISR to leaf pathogens.
Here, we show that the ISS-inducing phenotype is common among the root-associated Pseudomonas spp. Using comparative genomics, we identified a single locus of Pseudomonas fluorescens strain that is unique to ISS. We generated a net removal of the 11-gene loci ISS and found it necessary to phenotype ISS. Although the function of genes estimated in the locus that is not clear based on the similarity with genes of known function, the locus of the ISS is present in a variety of bacteria, and the part of the gene that was previously involved in the pathogenesis in animals. Collectively, these data suggest that a single locus contributes systemic bacterial plant modulation Microbiome immunity.
IMPORTANCE related bacteria can have various effects on the health of their hosts, but the genetic and molecular basis of these effects have largely remained elusive. This work indicates that the locus of new bacteria can regulate systemic plant immunity.
In addition, this work suggests that the growth-promoting strain may have unexpected consequences for the plant immunity, and this is very important to consider when microbiome plant is being engineered for agronomic improvements.
Total Protein - Multiple Sclerosis Disease: Brain: Cerebellum
Description: Multiple organ digestive system diseased tissue array with normal tissue as control, including TNM, clinical stage and pathology grade, 40 cases/40 cores
