Natural scrublands in semi-arid deserts are increasingly being converted into fields. This results in losses of characteristic flora and fauna, and may also affect microbial diversity. In the present study, the long-term effect (50 years) of such a transition on soil bacterial communities was explored at two sites typical of semi-arid deserts. Comparisons were made between soil samples from alfalfa fields and the adjacent scrublands by two complementary methods based on 16S rRNA gene fragments amplified from total community DNA. Denaturing gradient gel electrophoresis (DGGE) analyses revealed significant effects of the transition on community composition of Bacteria, Actinobacteria, Alpha- and Betaproteobacteria at both sites. PhyloChip hybridization analysis uncovered that the transition negatively affected taxa such as Acidobacteria, Chloroflexi, Acidimicrobiales, Rubrobacterales, Deltaproteobacteria and Clostridia, while Alpha-, Beta- and Gammaproteobacteria, Bacteroidetes and Actinobacteria increased in abundance. Redundancy analysis suggested that the community composition of phyla responding to agricultural use (except for Spirochaetes) correlated with soil parameters that were significantly different between the agricultural and scrubland soil. The arable soils were lower in organic matter and phosphate concentration, and higher in salinity. The variation in the bacterial community composition was higher in soils from scrubland than from agriculture, as revealed by DGGE and PhyloChip analyses, suggesting reduced beta diversity due to agricultural practices. The long-term use for agriculture resulted in profound changes in the bacterial community and physicochemical characteristics of former scrublands, which may irreversibly affect the natural soil ecosystem.

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Molecular analysis of the 16S rDNA of the intestinal microbiota of whiteleg shrimp Litopenaeus vannamei was examined to investigate the effect of a Bacillus mix (Bacillus endophyticus YC3-b, Bacillus endophyticus C2-2, Bacillus tequilensisYC5-2) and the commercial probiotic (Alibio(®)) on intestinal bacterial communities and resistance to Vibrio infection. PCR and single strain conformation polymorphism (SSCP) analyses were then performed on DNA extracted directly from guts. Injection of shrimp with V. parahaemolyticus at 2.5 × 10(5) CFU g(-1) per shrimp followed 168 h after inoculation with Bacillus mix or the Alibio probiotic or the positive control. Diversity analyses showed that the bacterial community resulting from the Bacillus mix had the highest diversity and evenness and the bacterial community of the control had the lowest diversity. The bacterial community treated with probiotics mainly consisted of α- and γ-proteobacteria, fusobacteria, sphingobacteria, and flavobacteria, while the control mainly consisted of α-proteobacteria and flavobacteria. Differences were grouped using principal component analyses of PCR-SSCP of the microbiota, according to the time of inoculation. In Vibrio parahaemolyticus-infected shrimp, the Bacillus mix (~33 %) induced a significant increase in survival compared to Alibio (~21 %) and the control (~9 %). We conclude that administration of the Bacillus mix induced modulation of the intestinal microbiota of L. vannamei and increased its resistance to V. parahaemolyticus.

Salinity is a major threat limiting the productivity of crop plants. A clear demand for improving the salinity tolerance of the major crop plants is imposed by the rapidly growing world population. This review summarizes the achievements of proteomic studies to elucidate the response mechanisms of selected model and crop plants to cope with salinity stress. We also aim at identifying research areas, which deserve increased attention in future proteome studies, as a prerequisite to identify novel targets for breeding strategies. Such areas include the impact of plant-microbial communities on the salinity tolerance of crops under field conditions, the importance of hormone signaling in abiotic stress tolerance, and the significance of control mechanisms underlying the observed changes in the proteome patterns. We briefly highlight the impact of novel tools for future proteome studies and argue for the use of integrated approaches. The evaluation of genetic resources by means of novel automated phenotyping facilities will have a large impact on the application of proteomics especially in combination with metabolomics or transcriptomics.

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Salicornia bigelovii is a novel crop for salty soils, which can contribute to arid-zone management where irrigation with salty water, including sea water, is now a necessity. Nitrogen fixation by bacteria associated with the roots of S. bigelovii and similar halophytes is an important source of available nitrogen in salt marsh ecosystems. However, the diversity of the rhizosphere of Salicornia is unknown. Five areas around the Bay of La Paz in Baja California Sur, Mexico were sampled to detect nitrogen-fixing bacteria associated with this halophyte; from these, 18 colonies were isolated. Only one showed high acetylene reduction activity. This bacterium was identified as Klebsiella pneumoniae. The effects of K. pneumoniae were evaluated at the germination and early seedling growth stages of two genotypes of S. bigelovii (Ôwild genotypeÕ and cultivar SOS-10), as an alternative crop for semiarid and saline environments. This bacterium, in conjunction with Azospirillum halopraeferens, was tested for growth-promoting ability when inoculated on S. bigelovii genotypes under various saline concentration conditions. During germination and early seedling growth, K. pneumoniae showed high specificity for the wild S. bigelovii genotype, while A. halopraeferens was more specific for the improved S. bigelovii genotype SOS-10. This is the first report of K. pneumoniae as a nitrogen-fixing bacterium associated with the oilseed S. bigelovii, a novel halophyte crop. A reliable biological method, based on beneficial bacteria, is suggested to help maintain or improve the fertility of soils sustaining Salicornia fields.

Some synthetic fungicides have been currently prohibited due to their adverse effects; thus, searching for alternatives to decrease their application is a priority worldwide. An alternative to the application of synthetic fungicides is chitosan -a natural biopolymer- because of its biocompatibility, biodegradability, and bioactivity. Chitosan has been used in different industries, such as cosmetology, pharmaceutics, food, among others. In agriculture, it has been used as a resistance inductor and bio-fungicide because of its antimicrobial activity and for plant development as growth promoter. Although many works have been published on chitosan for its characteristics and mode of action, the direct effects on agriculture -both in plant and fruit phytopathogens- have not been reported. Therefore, the objective of this review is to summarize recent advances and achievements of chitosan application in agriculture with special attention to its antimicrobial properties and plant defence induction mechanisms.

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