Genome survey of pistachio (Pistacia vera L.) by next generation sequencing: Development of novel SSR markers and genetic diversity in Pistacia species

Genetic diversity measures in P. terebinthus: allele ranges, number of alleles (Na), number of effective alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (He), and PIC values of 119 polymorphic SSR loci. (DOCX 38 kb

Combined Effects of Dietary Bacillus subtilis and Trans-cinnamic Acid on Growth Performance, Whole Body Compositions, Digestive Enzymes and Intestinal bacteria in Rainbow Trout (Oncorhynchus mykiss)

In this study, the combined effects of dietary Bacillus subtilis (BS, 10 7 g/cfu) and different levels (0.025%, 0.050%, 0.075% and 0.150%) of trans-cinnamic acid (CA) on fish growth performance, whole body compositions, digestive enzymes, intestinal bacteria and internal organ index of rainbow trout (Oncorhynchus mykiss) were investigated. Six different experimental groups including control group (C), C+BS, 0.025%CA+BS, 0.050%CA+BS, 0.075CA+BS, 0.150%CA+BS) were established. According to the results obtained, growth performance, whole body compositions and digestive pH were not statistically significant among groups. Further, no significant differences were found between experimental groups in terms of the intestinal enzymes (trypsin, alkaline phosphatase and lipase) and gastric pepsin. Significantly higher levels of intestinal amylase were found in the control+BS, 0.025%CA+BS, 0.050% CA+BS, and 0.075%CA+BS compared to the control and 0.150%CA+BS groups. Moreover, coliform and Enterobacteriaceae counts were highest in the control+B. subtilis and lowest in the 0.150% CA + B. subtilis groups

Pistachio genomes provide insights into nut tree domestication and ZW sex chromosome evolution

Pistachio is a nut crop domesticated in the Fertile Crescent and a dioecious species with ZW sex chromosomes. We sequenced the genomes of Pistacia vera cultivar (cv.) Siirt, the female parent, and P. vera cv. Bagyolu, the male parent. Two chromosome-level reference genomes of pistachio were generated, and Z and W chromosomes were assembled. The ZW chromosomes originated from an autosome following the first inversion, which occurred approximately 8.18 Mya. Three inversion events in the W chromosome led to the formation of a 12.7-Mb (22.8% of the W chromosome) non-recombining region. These W-specific sequences contain several genes of interest that may have played a pivotal role in sex determination and contributed to the initiation and evolution of a ZW sex chromosome system in pistachio. The W-specific genes, including defA, defA-like, DYT1, two PTEN1, and two tandem duplications of six VPS13A paralogs, are strong candidates for sex determination or differentiation. Demographic history analysis of resequenced genomes suggest that cultivated pistachio underwent severe domestication bottlenecks approximately 7640 years ago, dating the domestication event close to the archeological record of pistachio domestication in Iran. We identified 390, 211, and 290 potential selective sweeps in 3 cultivar subgroups that underlie agronomic traits such as nut development and quality, grafting success, flowering time shift, and drought tolerance. These findings have improved our understanding of the genomic basis of sex determination/differentiation and horticulturally important traits and will accelerate the improvement of pistachio cultivars and rootstocks