Drought is a major limiting factor for plant survival and crop productivity. Stylosanthes angustifolia, a pioneer plant, exhibits remarkable drought tolerance, yet the molecular mechanisms driving its drought resistance remain largely unexplored.
We present a chromosome-scale reference genome of S. angustifolia, which provides insights into its genome evolution and drought tolerance mechanisms. The assembled genome is 645.88 Mb in size, containing 319.98 Mb of repetitive sequences and 36,857 protein-coding genes. The high quality of this genome assembly is demonstrated by the presence of 99.26% Benchmarking Universal Single-Copy Orthologs and a 19.49 LTR assembly index. Evolutionary analyses revealed that S. angustifolia shares a whole-genome duplication (WGD) event with other legumes but lacks recent WGD. Additionally, S. angustifolia has undergone gene expansion through tandem duplication approximately 12.31 million years ago. Through integrative multi-omics analyses, we identified four gene families, namely xanthoxin dehydrogenase, 2-hydroxyisoflavanone dehydratase, patatin-related phospholipase A, and stachyose synthetase, that underwent tandem duplication and were significantly up-regulated under drought stress. These gene families contribute to the biosynthesis of abscisic acid, genistein, daidzein, jasmonic acid, and stachyose, thereby enhancing drought tolerance.
The genome assembly of S. angustifolia represents a significant advancement in understanding the genetic mechanisms underlying drought tolerance in this pioneer plant species. This genomic resource provides critical insights into the evolution of drought resistance and offers valuable genetic information for breeding programs aimed at improving drought resistance in crops.

DNA methylation plays a key role in regulating gene expression and carcinogenesis. Extant methylation bisulfite sequencing (BS) researches mainly focus on calling SNP, DMR, and ASM, instead of virus integration positions. We developed a new and easy-to-use software, named as BS-virus-finder (https://github.com/BioInfoTools/BSVF), to detect viral integration breakpoints in whole human genomes. BS-virus-finder demonstrates moderate sensitivity and specificity, and is useful to be applied in epigenetic researches and to reveal the relationship between viral integration and DNA methylation. BS-virus-finder is the first software to detect virus by using bisulfite sequencing data.

Chickpea (Cicer arietinum) is one of the world's most consumed pulses. The Chickpea plant has finely divided leaves, giving it a feathery appearance. The pods are oblong (2 to 3 by 1 to 2 cm) and contain one or two beaked seeds which may be white, yellow, red, brown, or nearly black. They do well in a cool, dry climate and are grown in India as a winter crop.
The draft of the chickpea genome is based on genotype CDC Frontier, a Canadian kabuli chickpea variety.

DNA from the chickpea was collected and e sequenced the 0.74 Gb genome to a depth of approximately 207 x with short reads from a series of libraries with various insert sizes ( 170bp, 500bp, 800bp, 2kb, 5kb, 10kb and 20kb) on a HiSeq 2000 sequencer.
The assembled scaffolds of high quality sequences total 153 Gb, with the contig and scaffold N50 values of 645 kb and 39.9 Mb respectively. We identified 28,256 protein-coding genes with an mean coding length of 1,166 bp.

The wheat A genome, as a basic genome of bread wheat and other polyploid wheats, is centrally important to the evolution, domestication, and genetic improvement of wheat. The progenitor of the A genome is the diploid wild einkorn wheat Triticum urartu. Here, we sequenced T. urartu (accession G1812) using a whole-genome shotgun strategy on the Illumina HiSeq 2000 platform, and assembled the genome using SOAPdenovo2 with 448.49 Gb of filtered high-quality sequence data. The genome assembly reached 3.92 Gb (without Ns) with a contig N50 length of 3.42 kb and 4.66 Gb (with Ns) with a scaffold N50 length of 63.69 kb . To facilitate gene prediction, we generated a 116.65 Mb transcriptome of T. urartu with 67.14 Gb RNA-Seq data from eight different tissues and treatments, and 49,935 assembled transcripts from six tissues using the Roche 454 sequencing platform. In total, we predicted 34,879 protein-coding gene models. The average gene size was 3,207 bp, with a mean of 4.7 exons per gene.

A spontaneous hybridization of the wild diploid grass Aegilops tauschii (2n=14, DD) with cultivated tetraploid wheat Triticum turgidum (2n=4x=28, AABB) 8,000~10,000 years ago in the Fertile Crescent resulted in the bread wheat (Triticum aestivum; 2n=6x=42, AABBDD), one of the earliest cultivated crops in modern agriculture. We sequenced the 4.36-gigabase (Gb) genome of Ae. tauschii by generating ~90x genome coverage of short reads from a series of libraries with various insert sizes. The assembled scaffolds of high quality sequences represent 83.4% of the genome, in which 65.9% comprised of repetitive elements. Assisted with comprehensive RNA-Seq data, we identified 43,150 protein-coding genes, with 30,697 (71.1%) of them uniquely anchored to chromosomes based on an integrated density genetic map. A number of agriculturally relevant gene families, such as disease resistance, abiotic stress tolerance, and grain quality genes, were found to expand in Ae. tauschii. The draft genome of Ae. tauschii hence provides novel insights into its role in enabling environmental adaptation of common wheat and in defining the large and complicated genomes of wheat species.

The giant panda (Ailuropoda melanoleuca) is considered a symbol of China and is a much loved animal all around the world. It is also one of the worlds most endangered species, making it a flagship species for conservation efforts. As the first fully sequenced Ursidae and the second fully sequenced carnivore after the dog, the whole genome sequence and annotation data provide an unparalleled amount of information to aid in understanding the genetic and biological underpinnings of this unique species, and will help contribute to disease control and conservation efforts.In 2008, BGI completed a first draft of the genome sequence of a three-year old female giant panda named Jingjing, who was used as a model for the 2008 Olympics in Beijing, China (doi: 10.1038/nature08696). Using second-generation Illumina GA sequencing data, the first de novo genome assembly was created using short-read sequencing technology. Here you will find the giant panda genome sequence assembly as well as annotation information, such as gene structure and function, non-coding RNAs, and repeat elements. Also presented are polymorphism information detected in the diploid genome, including SNPs, indels, and structural variations (SVs). The assembly was done using SOAPdenovo software and the panda genome data is visualized via MapView, which is powered by the Google Web Toolkit.