Zhuo Wang

Polyploidization has provided much genetic variation for plant adaptive evolution, but the mechanisms by which the molecular evolution of polyploid genomes establishes genetic architecture underlying species differentiation are unclear. Brassica is an ideal model to increase knowledge of polyploid evolution. Here we describe a draft genome sequence of Brassica oleracea, comparing it with that of its sister species B. rapa to reveal numerous chromosome rearrangements and asymmetrical gene loss in duplicated genomic blocks, asymmetrical amplification of transposable elements, differential gene co-retention for specific pathways and variation in gene expression, including alternative splicing, among a large number of paralogous and orthologous genes. Genes related to the production of anticancer phytochemicals and morphological variations illustrate consequences of genome duplication and gene divergence, imparting biochemical and morphological variation to B. oleracea. This study provides insights into Brassica genome evolution and will underpin research into the many important crops in this genus. Brassica oleracea is plant species comprising economically important vegetable crops. Here, the authors report the draft genome sequence of B. oleracea and, through a comparative analysis with the closely related B. rapa, reveal insights into Brassicaevolution and divergence of interspecific genomes and intraspecific subgenomes.

Abstract In general, the Bay of Bengal, Indochina Peninsula, and Philippines are in the Asian summer monsoon regime while the Maritime Continent experiences a wet monsoon during boreal winter and a dry season during boreal summer. However, the complex distribution of land, sea, and terrain results in significant local variations of the annual cycle. This work uses historical station rainfall data to classify the annual cycles of rainfall over land areas, the TRMM rainfall measurements to identify the monsoon regimes of the four seasons in all of Southeast Asia, and the QuikSCAT winds to study the causes of the variations. The annual cycle is dominated largely by interactions between the complex terrain and a simple annual reversal of the surface monsoonal winds throughout all monsoon regions from the Indian Ocean to the South China Sea and the equatorial western Pacific. The semiannual cycle is comparable in magnitude to the annual cycle over parts of the equatorial landmasses, but only a very small region reflects the twice-yearly crossing of the sun. Most of the semiannual cycle appears to be due to the influence of both the summer and the winter monsoon in the western part of the Maritime Continent where the annual cycle maximum occurs in fall. Analysis of the TRMM data reveals a structure whereby the boreal summer and winter monsoon rainfall regimes intertwine across the equator and both are strongly affected by the wind–terrain interaction. In particular, the boreal winter regime extends far northward along the eastern flanks of the major island groups and landmasses. A hypothesis is presented to explain the asymmetric seasonal march in which the maximum convection follows a gradual southeastward progression path from the Asian summer monsoon to the Asian winter monsoon but experiences a sudden transition in the reverse. The hypothesis is based on the redistribution of mass between land and ocean areas during spring and fall that results from different land–ocean thermal memories. This mass redistribution between the two transition seasons produces sea level patterns leading to asymmetric wind–terrain interactions throughout the region, and a low-level divergence asymmetry in the region that promotes the southward march of maximum convection during boreal fall but opposes the northward march during boreal spring.

BACKGROUND: The brown planthopper, Nilaparvata lugens, the most destructive pest of rice, is a typical monophagous herbivore that feeds exclusively on rice sap, which migrates over long distances. Outbreaks of it have re-occurred approximately every three years in Asia. It has also been used as a model system for ecological studies and for developing effective pest management. To better understand how a monophagous sap-sucking arthropod herbivore has adapted to its exclusive host selection and to provide insights to improve pest control, we analyzed the genomes of the brown planthopper and its two endosymbionts. RESULTS: We describe the 1.14 gigabase planthopper draft genome and the genomes of two microbial endosymbionts that permit the planthopper to forage exclusively on rice fields. Only 40.8% of the 27,571 identified Nilaparvata protein coding genes have detectable shared homology with the proteomes of the other 14 arthropods included in this study, reflecting large-scale gene losses including in evolutionarily conserved gene families and biochemical pathways. These unique genomic features are functionally associated with the animal's exclusive plant host selection. Genes missing from the insect in conserved biochemical pathways that are essential for its survival on the nutritionally imbalanced sap diet are present in the genomes of its microbial endosymbionts, which have evolved to complement the mutualistic nutritional needs of the host. CONCLUSIONS: Our study reveals a series of complex adaptations of the brown planthopper involving a variety of biological processes, that result in its highly destructive impact on the exclusive host rice. All these findings highlight potential directions for effective pest control of the planthopper.