The complete chloroplast genome of an annual halophyte herb, Suaeda glauca (Amaranthaceae)

The complete chloroplast genome of the halophyte flowering plant Suaeda monoica from Jeddah, Saudi Arabia

The complete chloroplast genome (plastome) of the annual flowering halophyte herb Suaeda monoica Forssk. ex J. F. Gmel. family (Amaranthaceae) that grows in Jeddah, Saudi Arabia, was identified for the first time in this study. Suaeda monoica is a medicinal plant species whose taxonomic classification remains controversial. Further, studying the species is useful for current conservation and management efforts. In the current study, the full chloroplast genome S. monoica was reassembled using whole-genome next-generation sequencing and compared with the previously published chloroplast genomes of Suaeda species. The chloroplast genome size of Suaeda monoica was 151,789 bp, with a single large copy of 83,404 bp, a small single copy of 18,007 bp and two inverted repeats regions of 25,189 bp. GC content in the whole genome was 36.4%. The cp genome included 87 genes that coded for proteins, 37 genes coding for tRNA, 8 genes coding for rRNA and one non-coding pseudogene. Five chloroplast genome features were compared between S. monoica and S. japonica, S. glauca, S. salsa, S. malacosperma and S. physophora. Among Suaeda genus and equal to most angiosperms chloroplast genomes, the RSCU values were conservative. Two pseudogenes (accD and ycf1), rpl16 intron and ndhF-rpl32 intergenic spacer, were highlighted as suitable DNA barcodes for different Suaeda species. Phylogenetic analyses show Suaeda cluster into three main groups; one in which S. monoica was closer to S. salsa. The obtained result provided valuable information on the characteristics of the S. monoica chloroplast genome and the phylogenetic relationships.

The complete chloroplast genome of Caroxylon passerinum (Chenopodiaceae), an annual desert plant

Caroxylon passerinum is an important constructive species, which is widely distributed in both desert and desert steppe in north-western China. C. passerinum is one of hosts of holoparasitic Cistanche species. In this study, we report the complete chloroplast genome sequence of C. passerinum, which is 150,925 bp in length and comprises a large single-copy region (83,057 bp), a small single-copy region (18,180 bp), and a pair of inverted repeats (24,844 bp). It encodes 132 unique genes, including 89 protein-coding genes (PCGs), 35 tRNAs, and eight rRNAs. The overall GC content of this chloroplast genome is 36.8%. Maximum likelihood (ML) phylogenetic tree strongly supports that C. passerinum is closely related to the hosts of Cistanche deserticola, Haloxylon persicum and Haloxylon ammodendron.

The Comparative Analyses of Six Complete Chloroplast Genomes of Morphologically Diverse Chenopodium album L. (Amaranthaceae) Collected in Korea

Chenopodium album sensu stricto belonging to C. album aggregate is an annual cosmopolitan weed displaying the diversity of morphologies. We completed the six chloroplast genomes of C. album s. str. collected in Korea to understand the relationship between the diversity of chloroplast genomes and their morphological variations. All six C. album chloroplast genomes have a typical quadripartite structure with length ranging from 151,906 bp to 152,199 bp, similar to the previously sequenced C. album chloroplast genome (NC_034950). In total, 56 single nucleotide polymorphisms (SNPs) and 26 insertion and deletion (INDEL) regions (308 bp in total) were identified from the six chloroplast genomes, presenting a low level of intraspecific variations in comparison to the other angiosperm species. 376 normal simple sequence repeats were identified in all seven C. album chloroplast genomes. The phylogenetic analysis based on all available complete Amaranthaceae chloroplast genomes presents phylogenetic positions of six C. album samples as well as correlation with one of C. album morphological features. Our results provide the way to investigate intraspecific features of C. album chloroplast genomes and also the insights of understanding various intraspecific characteristics including morphological features.

The mechanisms of improving coastal saline soils by planting rice

Planting rice is one of the effective ways to improve saline soils, but the underlying mechanisms are unknown. We studied basic soil properties (including pH, salt content, total nitrogen, etc.) and microbial diversity of the bare soil (salt content >4 g/kg, CK), the Suaeda (Suaeda glauca (Bunge) Bunge) soil (JP), and the soil in which rice (cv. Huaidao 5) grew for one (1Y) and three (3Y) years. The results showed that the soil salinity decreased in the order: CK > JP > 1Y > 3Y. The contents of soil organic matter, total nitrogen, dissolved organic carbon, readily oxidizable carbon, microbial biomass carbon, and particulate organic carbon were higher in 1Y and 3Y compared with CK. The Chao 1 index of soil microbiome diversity was about 1.20 times and 1.49 times higher in the soils after rice compared with JP and CK, respectively. Among the soil microorganisms, the top four abundant phyla were Proteobacteria, Chloroflexi, Bacteriodetes, and Firmicutes. In summary, planting rice decreased soil salinity, and increased the content of nutrients and diversity of microorganisms, thereby improving the saline soil.