BMC Genomics. 2013 Apr 11;14:241. doi: 10.1186/1471-2164-14-241.
Cotton (Gossypium hirsutum L.) is a major fiber crop that is grown worldwide; it faces extensive damage from sap-sucking insects, including aphids and whiteflies. Genome-wide transcriptome analysis was performed to understand the molecular details of interaction between Gossypium hirsutum L. and sap-sucking pests, namely Aphis gossypii (Aphid) and Bemisia tabacci (Whiteflies). Roche's GS-Titanium was used to sequence transcriptomes of cotton infested with aphids and whiteflies for 2 h and 24 h.
A total of 100935 contigs were produced with an average length of 529 bp after an assembly in all five selected conditions. The Blastn of the non-redundant (nr) cotton EST database resulted in the identification of 580 novel contigs in the cotton plant. It should be noted that in spite of minimal physical damage caused by the sap-sucking insects, they can change the gene expression of plants in 2 h of infestation; further change in gene expression due to whiteflies is quicker than due to aphids. The impact of the whitefly 24 h after infestation was more or less similar to that of the aphid 2 h after infestation. Aphids and whiteflies affect many genes that are regulated by various phytohormones and in response to microbial infection, indicating the involvement of complex crosstalk between these pathways. The KOBAS analysis of differentially regulated transcripts in response to aphids and whiteflies indicated that both the insects induce the metabolism of amino acids biosynthesis specially in case of whiteflies infestation at later phase. Further we also observed that expression of transcript related to photosynthesis specially carbon fixation were significantly influenced by infestation of Aphids and Whiteflies.
A comparison of different transcriptomes leads to the identification of differentially and temporally regulated transcripts in response to infestation by aphids and whiteflies. Most of these differentially expressed contigs were related to genes involved in biotic, abiotic stresses and enzymatic activities related to hydrolases, transferases, and kinases. The expression of some marker genes such as the overexpressors of cationic peroxidase 3, lipoxygenase I, TGA2, and non-specific lipase, which are involved in phytohormonal-mediated plant resistance development, was suppressed after infestation by aphids and whiteflies, indicating that insects suppressed plant resistance in order to facilitate their infestation. We also concluded that cotton shares several pathways such as phagosomes, RNA transport, and amino acid metabolism with Arabidopsis in response to the infestation by aphids and whiteflies.
棉花（Gossypium hirsutum L.）是一种重要的纤维作物，在全球范围内广泛种植；它面临着大量吸食汁液的昆虫的广泛破坏，包括蚜虫和粉虱。为了了解棉花与吸食汁液的害虫（即棉蚜和烟粉虱）之间相互作用的分子细节，进行了全基因组转录组分析。罗氏的 GS-Titanium 用于对受蚜虫和粉虱侵袭的棉花进行 2 小时和 24 小时的转录组测序。
在所有五个选定条件下进行组装后，共产生了 100935 个 contigs，平均长度为 529bp。非冗余（nr）棉花 EST 数据库的 Blastn 鉴定出棉花植物中的 580 个新 contigs。值得注意的是，尽管吸食汁液的昆虫造成的物理损伤很小，但它们可以在 2 小时的侵染过程中改变植物的基因表达；粉虱引起的基因表达变化比蚜虫更快。24 小时后，粉虱的影响或多或少与 2 小时后蚜虫的影响相似。蚜虫和粉虱影响许多受各种植物激素调节的基因，并对微生物感染作出反应，表明这些途径之间存在复杂的串扰。对蚜虫和粉虱反应的差异调节转录物的 KOBAS 分析表明，两种昆虫都诱导了氨基酸生物合成的新陈代谢，特别是在粉虱后期侵染时。此外，我们还观察到与光合作用有关的转录本，特别是与碳固定有关的转录本，受到蚜虫和粉虱侵染的显著影响。
不同转录组的比较导致了对蚜虫和粉虱侵染的差异和时间调节转录物的鉴定。这些差异表达的 contigs大多数与参与生物、非生物胁迫以及与水解酶、转移酶和激酶相关的酶活性有关的基因有关。一些标记基因（如阳离子过氧化物酶 3、脂氧合酶 I、TGA2 和非特异性脂肪酶的过表达基因）的表达在受到蚜虫和粉虱的侵害后被抑制，表明昆虫抑制了植物的抗性，以便于它们的侵染。我们还得出结论，棉花与拟南芥在受到蚜虫和粉虱侵染时共享一些途径，如吞噬体、RNA 运输和氨基酸代谢。
