The effect of replicate number and image analysis method on sweetpotato [Ipomoea batatas (L.) Lam.] cDNA microarray results

Microarray analysis makes it possible to determine the relative expression of thousands of genes simultaneously. It has gained popularity at a rapid rate, but many caveats remain. In an effort to establish reliable microarray protocols for sweetpotato [Ipomoea batatas (L.) Lam.], we compared the effect of replication number and image analysis software with results obtained by quantitative rela-time PCR (Q-RT-PCR). Sweetpotato storage root development is the most economically important process in sweetpotato. In order to identify genes that may play a role in this process, RNA for microarray analysis was extracted from sweetpotato fibrous and storage roots. Four data sets, Spot4, Spot6, Finder4 and Finder6, were created using 4 or 6 replications, and the image analysis software of UCSF Spot or TIGR Spotfinder were used for spot detection and quantification. The ability of these methods to identify significant differential expression between treatments was investigated. The data sets with 6 replications were better at identifying genes with significant differential expression than the ones of 4 replications. Furthermore when using 6 replicates, UCSF Spot was superior to TIGR Spotfinder in identifying genes differentially expressed (18 out of 19) based on Q-RT-PCR. Our study shows the importance of proper replication number and image analysis for microarray studies.     

Impact of cotton planting date and nitrogen fertilization on Bemisia argentifolii populations

The silverleaf whitefly (Bemisia argentifolii Bellows and Perring) is a widely distributed pest of cotton (Gossypium hirsutum L.) and the population levels may be affected by rates of nitrogen fertilization and planting date. Field experiments were conducted to investigate the impact of cotton planting date and nitrogen fertilization on silverleaf whitefly population dynamics. Cotton was planted on 26 April and 8 June, for the early and late plantings, respectively. Nitrogen treatments consisted of soil applications of 0, 112, 168 and 224 kg of nitrogen per hectare. The population levels of adult whiteflies were much higher on early-planted cotton than on late planting. Also, increased numbers of adult whiteflies on both early and late plantings occurred with increasing amounts of applied nitrogen.Applied nitrogen increased seed cotton yields of early plantings but had no effect on the yields of late plantings.     

Dolichos yellow mosaic virus belongs to a distinct lineage of Old World begomoviruses; its biological and molecular properties

Dolichos yellow mosaic disease (DYMD) affects the production of dolichos in South Asia. Diseased plants produce characteristic bright yellow mosaic patches on the leaves and early infections cause reductions in yield. The putative dolichos yellow mosaic virus (DoYMV) was transmitted poorly (maximum 18.3% transmission) by the whitefly, Bemisia tabaci. DoYMV has a narrow host range and infected only Lablab purpureus and L. purpureus var. typicum out of the 36 species tested. Virus was detected using monoclonal antibodies in a triple‐antibody sandwich enzyme‐linked immunosorbent assay and by PCR. Complete DNA‐A components of DoYMV isolates from Mysore and Bangalore, South India, were sequenced, but several attempts to identify DNA‐B and DNA‐β were unsuccessful. DoYMV isolates shared DNA‐A nucleotide identities of 92.5–95.3% with previously described isolates from North India and Bangladesh. They were most similar to mungbean‐infecting begomoviruses at 61.6–64.4% of DNA‐A nucleotide identities. Phylogenetic analyses of DNA‐A sequences grouped the dolichos‐infecting and mungbean‐infecting begomoviruses into a distinct cluster away from begomoviruses infecting non‐leguminous plants in the Indian subcontinent. Antigenically, legume‐infecting begomoviruses were most similar to each other compared with non‐legume viruses. Collectively, these results indicate that legume‐infecting begomoviruses in the Indian subcontinent belonged to a distinct lineage of Old World begomoviruses.     

Laboratory studies on extracts of Melia fruit and Neem fruit on B. brassicae,B. tabaci and their predators and parasites

Abstract

The biological effect of plant extracts on the two predators C. carnea and C. undecimpunctata was studied in the laboratory. Treated B. brassicae was offered to the newly hatched larvae of the two predators. The rate of prey consumption and duration of the larval instars of the two predators were slightly affected as a result of the treatments of the plant extracts. Adults of the aphid parasite D. Rapae and the whitefly parasite E. Mundus were exposed to the plant extracts via feeding on treated honey droplets or parasitized treated hosts. Mortality percentages of D. Rapae fed on honey contaminated with plant extracts were 50 and 80% for extracts of Melia fruits in ethanol and in petroleum ether, respectively. Mortalities in parasites developed in hosts treated with plant extracts of Neem fruits in ethanol and Melia flowers in petroleum ether in were 33.3 and 81.5%, respectively. Similar results were obtained when E. Mundus received the same treatments of the plant extracts.     

Evidence of gene flow between sympatric populations of the Middle East‐Asia Minor 1 and Mediterranean putative species of Bemisia tabaci

Bemisia tabaci is a complex of putative species that exhibit a strong geographical pattern. Crossing experiments have revealed various degrees of reproductive isolation between these nascent species, ranging between fertile first‐generation hybrids (F1) and no F1 at all. However, the relevance of these results under natural conditions is generally not known. The worldwide invasion of the putative species Middle East‐Asia Minor 1 (MEAM1) has caused secondary contacts between allopatric species, which in turn provide an opportunity to detect potential hybrids in nature. A total of 346 female B. tabaci were collected in 2003 and 2005 in the North East of Morocco and assigned to MEAM1 (119), Mediterranean (Med) (225) and a new putative species (2) using mitochondrial cytochrome oxidase (mtCOI) gene sequences. MEAM1 and Med individuals were characterized at seven microsatellite loci. MEAM1 and Med were found to be sympatric in 11 of 12 samples (6 fields/year). As previously reported from Spain, MEAM1 frequency decreased over time. The genetic data are consistent with a recent introduction of MEAM1. A Bayesian clustering analysis (Structure ) distinguished two groups, which were 100% consistent with the mtCOI groups. From several lines of evidence, two individuals were identified as hybrids. Assignment profiles using NewHybrids and allele composition indicated that they were not F1 hybrids. The results are discussed in relation to the secondary endosymbiont infection status determined on a sample of individuals, and the contrasting outcomes of the reported crossing experiments between MEAM1 and Med.     

减氮运筹对甘薯光合作用和叶绿素荧光特性的影响

光合性能是决定作物产量形成的关键,氮肥的合理施用是调控作物光合特性和产量形成的重要措施.于2016—2017年开展盆栽试验,研究了减氮和施肥方式对甘薯叶片光合作用和叶绿素荧光特性的影响.试验以常规习惯基施氮肥100 kg·hm^-2为对照(FP),在常规施氮量的基础上减氮20%,同时设置3种氮肥运筹方式:100%基施(JS)、100%移栽后35 d追施(KS)、50%基施+50%移栽后35 d追施(FS).结果表明:与常规基施氮肥100 kg·hm^-2相比,减氮条件下氮肥全部基施显著降低了全生育期甘薯光合性能,但追施处理显著提高了块根膨大期净光合速率(P_n)、气孔导度(g_s)、胞间CO₂浓度(C_i)和叶绿素(Chl a+b)含量.不同处理下,P_n、g_s、C_i和Chl a+b均以50%基施+50%追施处理最高.减氮分施处理甘薯块根膨大期的PSⅡ实际光化学效率(Φ_PSⅡ)、光化学淬灭系数(q_P)、PSⅡ最大光化学效率(F_v/F_m)和PSⅡ潜在活性(F_v/F_o) 提高,而初始荧光(F_o)和非光化学淬灭系数(NPQ)则降低.氮肥分施通过提高PSⅡ的光化学效率和电子传递速率,降低光能的热耗散,提高了甘薯块根膨大期功能叶的光合速率.2个品种不同年际间表现相同.表明氮肥一次性基施或追施均不利于提高甘薯叶片光合性能.减氮20%水平下,50%基施+50%追施可减缓叶片早衰,延长叶片功能期,提高甘薯的光合生产能力和生物量,有利于产量形成.     

Genetic diversity and geographic distribution of Bemisia tabaci and Trialeurodes vaporariorum in Costa Rica

The tobacco whitefly Bemisia tabaci (Gennadius) cryptic species complex and of the greenhouse whitefly Trialeurodes vaporariorum (Westwood) are extensively reported as destructive pests in vegetable crops worldwide. A survey was conducted in 2011 and 2012 to determine the occurrence and genetic diversity present in the populations of these whiteflies in the major vegetable production areas of Costa Rica. Insect samples were collected from sweet pepper (Capsicum annuum L.), tomato (Solanum lycopersicum L.), common bean (Phaseolus vulgaris L.) and weeds present in commercial crops either in open field or greenhouse conditions. PCR‐RFLP analysis of mitochondrial cytochrome c oxidase subunit 1 gene (mtCOI) sequences of 621 whitefly individuals confirmed the presence of the Mediterranean (MED) type of the B. tabaci and of T. vaporariorum in most sampled regions. Also, individuals of the Middle East‐Asia Minor 1 (MEAM1) type of the B. tabaci were observed in low numbers. Contingency analyses based on type of crop, geographical region, whitefly species, year of collection and production system confirmed that T. vaporariorum was the most frequent species in vegetable production areas in Costa Rica, both in greenhouses and in open fields. B. tabaci MED is likely spreading to new areas of the country, whereas B. tabaci MEAM1 was mostly absent or rarely found. Comparisons of mtCOI sequences from B. tabaci individuals revealed the presence of four B. tabaci sequence haplotypes (named MED‐i, MED‐ii, MEAM1‐i, MEAM1‐xviii) in Costa Rica, three of them identical to B. tabaci haplotypes previously reported in the Western Hemisphere and other parts of the world. Analysis of sequences of T. vaporariorum individuals revealed a more complex population with the presence of 11 haplotypes, two of which were identical to T. vaporariorum sequences reported from other countries.     

Species and endosymbiont diversity of Bemisia tabaci (Homoptera: Aleyrodidae) on vegetable crops in Senegal

Bemisia tabaci‐transmitted geminiviruses are one of the major threats on cassava and vegetable crops in Africa. However, to date, few studies are available on the diversity of B. tabaci and their associated endosymbionts in Africa. More than 28 species have been described in the complex of B. tabaci cryptic species; among them, 2 are invasive pests worldwide: MED and MEAM1. In order to assess the species diversity of B. tabaci in vegetable crops in Senegal, several samplings in different localities, hosts and seasons were collected and analyzed with nuclear (microsatellite) and mitochondrial (COI) markers. The bacterial endosymbiont community was also studied for each sample. Two species were detected: MED Q1 and MEAM1 B. Patterns of MED Q1 (dominance on most of the samples and sites, highest nuclear and mitochondrial diversity and broader secondary endosymbiont community: Hamiltonella, Cardinium, Wolbachia and Rickettsia), point toward a predominant resident begomovirus vector group for MED Q1 on market gardening crops. Furthermore, the lower prevalence of the second species MEAM1 B, its lower nuclear and mitochondrial diversity and a narrower secondary endosymbiont community (Hamiltonella/Rickettsia), indicate that this genetic group is exotic and results from a recent invasion in this area.     

番茄黄化曲叶病毒对温室白粉虱适合度的影响

【目的】温室白粉虱Trialeurodes vaporariorum(Westwood)是为害北方地区花卉蔬菜的主要粉虱种类,烟粉虱Bemisia tabaci(Gennadius)则在近些年逐渐频繁的花卉贸易活动中扩散至黑龙江省部分地区并取代了白粉虱成为当地温室害虫的优势物种,番茄黄化曲叶病毒(Tomato yellow leaf curl virus,TYLCV)是烟粉虱传播的一种重要双生病毒,对作物的危害十分严重,然而该病毒对本地白粉虱的影响及对烟粉虱与白粉虱种间竞争关系的影响尚待研究。【方法】本研究观察记录感染番茄黄化曲叶病毒的番茄植株上温室白粉虱和烟粉虱的种群动态及番茄形态和部分生理指标的变化。【结果】结果表明:1)有烟粉虱滋生的番茄植株矮小,根系发达;2)有白粉虱滋生的番茄略微矮粗,影响较小;3)感染病毒的番茄矮粗或矮小,根部无明显变化;4)染毒带虫相对于带虫处理而言,在白粉虱试验中,番茄植株矮小,根系生物量也骤减;与此相反,在烟粉虱试验中,番茄的反应相对缓和;5)此外,不同酶类对植株染毒的响应不同:Ach E酶活高不利于植株,而GST酶活高则有利于植株。【结论】总体而言:烟粉虱单独作用很不利于苗期番茄,白粉虱对苗期番茄没有明显的直接影响;而感染病毒会缓解烟粉虱对番茄的强烈刺激,而加重白粉虱对番茄的作用,即染毒使带白粉虱的苗期番茄生长发育受到明显抑制。与番茄变化情况相对应的是,染毒番茄上烟粉虱产卵较少,但在发育前期(从卵到伪蛹)存活率较高;染毒番茄上白粉虱产卵较多,但在前期存活率较低。本研究可为高纬度地区粉虱综合防控提供参考。     

Abundance,diversity and geographic distribution of cassava mosaic disease pandemic‐associated Bemisia tabaci in Tanzania

Bemisia tabaci (Gennadius) (Homoptera: Aleyrodidae), one of the most economically important agricultural pests worldwide, is the vector of cassava mosaic geminiviruses that cause cassava mosaic disease (CMD). In East and Central Africa, a severe CMD pandemic that spread from Uganda in the late 1980s still continues to devastate cassava crops. To assess the association of distinct B. tabaci genetic groups with the CMD pandemic, mitochondrial cytochrome oxidase I gene sequences were analysed from whiteflies collected during surveys conducted from 2010 to 2013 in Tanzania. Four genetic groups – Sub‐Saharan Africa 1 (SSA1), Mediterranean, Indian Ocean and East Africa 1, and a group of unknown whitefly species were identified. SSA1 comprised four subgroups: SSA1‐SG1, SSA1‐SG2, SSA1‐SG1/2 and SSA1‐SG3. SSA1‐SG1 was confined to the pandemic‐affected north‐western parts of Tanzania whilst SSA1‐SG2 and SSA1‐SG3 were found in the central and eastern parts not yet affected by the pandemic. The CMD pandemic front was estimated to lie in Geita Region, north‐western Tanzania, and to be spreading south‐east at a rate of ca 26 km/year. The pandemic‐associated B. tabaci SSA1‐SG1 predominated up to 180 km ahead of the CMD front indicating that changes in whitefly population characteristics precede changes in disease characteristics.