Candidate genes for drought tolerance and improved productivity in rice (Oryza sativa L.)

Candidate genes are sequenced genes of known biological action involved in the development or physiology of a trait. Twenty-one putative candidate genes were designed after an exhaustive search in the public databases along with an elaborate literature survey for candidate gene products and/or regulatory sequences associated with enhanced drought resistance. The downloaded sequences were then used to design primers considering the flanking sequences as well. Polymerase chain reaction (PCR) performed on 10 diverse cultivars that involvedJaponica, Indica and local accessions, revealed 12 polymorphic candidate genes. Seven polymorphic candidate genes were then utilized to genotype 148 individuals of CT9993 × IR62266 doubled haploid (DH) mapping population. The segregation data were tested for deviation from the expected Mendelian ratio (1:1) using a Chi-square test (<1%). Based on this, four candidate genes were assessed to be significant and the remaining three, as non-significant. All the significant candidate genes were biased towards CT9993, the female parent in the DH mapping population. Single-marker analysis strongly associated (<1%) them to different traits under both well-watered and low-moisture stress conditions. Two candidate genes,EXP15 andEXP13, were found to be associated with root number and silicon content in the stem respectively, under both well-watered and low-moisture stress conditions     

Plant choice in the construction of night nests by gorillas in the Bwindi Impenetrable National Park, Uganda

We investigated the choice of plants in nest sites and individual night nests of a group of gorillas (Gorilla beringei) in Bwindi Impenetrable National Park, Uganda. Most of the nests were built on the ground in secondary forest or canopy gaps. The gorillas used 62 plant genera in their nests out of a possible 108 plant genera available in the immediate environment. This group of Bwindi gorillas chose nest sites nonrandomly with respect to habitat type and selected nest sites in which Pteridium spp. or Mimulopsis spp. were the dominant plants. The Bwindi gorillas selected Pteridium spp. and Ipomea spp. to construct their individual night nests in greater quantities compared to their proportional availability in the immediate environment.     

An inexpensive method for remotely monitoring nest activity

ABSTRACT.   In studies of avian nest success, investigators often face the difficult task of periodically checking nest status while at the same time limiting observer influence on nest survival. Remotely monitoring nests using temperature data loggers is one method that allows for continuous data capture regarding nest status (i.e., active vs. inactive) without the negative effects associated with repeated nest checks. We used small temperature data loggers (Thermochron iButtons) to remotely monitor nests of Long-billed Curlews ( Numenius americanus ) in northeastern Nevada. Data loggers programmed to record temperature at 10-min and 20-min intervals were placed in curlew nests. Data loggers were set to collect data throughout the nesting cycle to determine onset of incubation and timing of nest failure. On average, Long-billed Curlews began incubating approximately 3 d after the first egg was laid and onset of incubation coincided with the laying of the third egg. iButtons allowed us to determine when incubation was terminated in 17 of 23 unsuccessful Long-billed Curlew nests, including 13 of 17 depredated nests. The presence of iButtons in Long-billed Curlew nests did not affect daily survival rate, egg hatchability or rate of nest abandonment. iButtons are an efficient and practical means for remotely monitoring nests of large egg-laying birds, such as the Long-billed Curlew.     

Behavioral ecology and natural history of Blepharidatta brasiliensis (Formicidae, Blepharidattini)

Fungus-growing ants (Attini, Formicidae) originated about 45–65 million years ago when forging a mutualistic association with basidiomycete fungi (Lepiotaceae). Here we use information on the biology of the non-leafcutting fungus-growing ants and their close relatives in the genus Blepharidatta to evaluate hypotheses for the evolutionary origin of fungus-growing behavior in attine ants. Observations on the natural history, ecology, and behavior of the Amazonian species Blepharidatta brasiliensis are reported here for the first time. Like most attine species, B. brasiliensis and the great majority of species in the tribe Blepharidattini are inhabitants of moist tropical rainforest, suggesting a rainforest habitat also for the ancestral attine ant. The ancestral attine was probably a leaf litter dweller, building small to medium sized nests (e.g., 20–200 workers) either between leaves in the litter or in decaying wood on the rainforest floor. Received 20 December 2005; revised 1 March 2006; accepted 7 March 2006.     

An alternative strategy for maintenance of eusociality after nest destruction: new nest construction in a primitively eusocial wasp

Although nests are central to colonial life in social insects, nests are sometimes damaged by predators or natural disasters. After nest destruction, individuals usually construct new nests. In this case, a sophisticated mechanism like the scent trail pheromone used in large insect colonies that recruit individuals to new nest sites would be important for the maintenance of eusociality. In independent-founding Polistes wasps, it is well known that queens enforce workers physiologically on the natal nests even if evidence of trail pheromone use has not been exhibited. We investigated the effect of the queen on an alternative strategy for the maintenance of eusociality by first females after nest destruction in the primitively eusocial wasp Polistes chinensis. We predicted that the first females in queen-absent colonies have various behavioral options after nest destruction. Even if the females construct new nests cooperatively with other individuals, the new nest construction should be conducted more smoothly in queen-present colonies because the queens regulate the behavior of wasps. We made wasps construct new nests by removing the entire brood from existing nests. The presence of the queen did not cause variation in the alternative strategy of the first females, as the first females (workers) usually constructed new nests cooperatively irrespective of the queen-presence. Thus, the workers in the queenpresent colonies affiliated to the new nest construction more smoothly and constructed new nests more efficiently than workers in the queen-absent colonies. Our results suggest that the presence of the queen is important for maintaining eusociality in primitively eusocial wasps after nest destruction. Received 8 February 2005; revised 5 October 2005; accepted 17 October 2005.     

QTL Analysis of Popping Fold and the Consistency of QTLs Under Two Environments in Popcorn

Popping fold (PF) is the most important quality trait in popcorn. In this study, a total of 259 F_2:3 families, derived from the cross between a dent corn inbred Dan232 and a popcorn inbred N04, were evaluated for their popping folds in replicated experiments under two environments. Of 613 simple sequence repeat (SSR) primer pairs screened, 183 pairs were selected to construct a genetic linkage map with the genetic distance of 1 762.2 cM (centimorgan) and on average 9.63 cM every marker. Quantative trait loci (QTL) were identified, and their genetic effects were estimated using CIM (composite interval mapping) method. The interactions among QTLs detected were calculated using MIM (multiple interval mapping) method. In all, 22 QTLs were detected, and only 5 of them were common under two environments. Contribution to phenotypic variation of a single QTL varied from 3.07% to 12.84%, and total contributions of all QTLs under two environments were 66.46% and 51.90%, respectively. Three QTLs (qPF-6-1, qPF-8-1 and qPF-1-3) with more than 10% contributions were observed. The additive effects were larger than dominant effects for most QTLs. The amount of QTLs showing additive, partially dominant, dominant and over-dominant effects were 4, 5, 0, 2 in spring sowing and 2, 5, 2, 2 in summer sowing, respectively. There were only 2.60% pairs of QTLs or maker intervals expressing AA, DA or DD interactions.     

Gene polymorphisms for elucidating the genetic structure of the heavy-metal hyperaccumulating trait in Thlaspi caerulescens and their cross-genera amplification in Brassicaceae

Genetic polymorphism was investigated in Thlaspi caerulescens J. & C. Presl at 15 gene regions, of which seven have been identified to putatively play a role in heavy-metal tolerance or hyperaccumulation. Single nucleotide and length polymorphisms were assessed at four cleaved amplified polymorphic sequences (CAPS) and 11 simple sequence repeat (microsatellite) loci, respectively. The utility of these loci for genetic studies in T. caerulescens was measured among seven natural populations (135 individuals). Fourteen loci rendered polymorphism, and the number of alleles per locus varied from 2 to 5 and 1 to 27 for CAPS and microsatellites, respectively. Up to 12 alleles per locus were detected in a population. The global observed heterozygosity per population varied between 0.01 and 0.31. Additionally, cross-species/genera amplification of loci was investigated on eight other Brassicaceae (five individuals per population). Overall, 70% of the cross-species/genera amplifications were successful, and among them, more than 40% provided intraspecific polymorphisms within a single population. This indicates that such markers may, as well, allow comparative population genetic or mapping studies between and within several Brassicaceae, particularly for genes involved in traits such as heavy-metal tolerance and/or hyperaccumulation.     

Factors Affecting Golden-Cheeked Warbler Nest Survival in Urban and Rural Landscapes

ABSTRACT We evaluated hypotheses concerning temporal, landscape, and habitat effects on nest survival of golden-cheeked warblers (Dendroica chrysoparia) in an urban and a rural landscape during the breeding seasons of 2005 and 2006 in central Texas, USA. We found support for temporal effects of year and cubic effect of date and included them in candidate models that evaluated habitat and landscape effects. Nest survival was lower in 2006 than in 2005 and decreased nonlinearly as the breeding season progressed. We found support for edge effects with decreased nest survival nearer edges and in areas with increased open edge density (wooded habitat abutting open habitat) or decreased trail density. However, confidence intervals for the model-averaged odds ratios overlapped 1.0 for all edge variables. Overall daily survival rate was 0.964 (95% CI = 0.949-0.975), resulting in a 25-day period survival of 0.398 (95% CI = 0.269-0.524). Period survival in Austin's urban landscape (0.399, 95% CI = 0.270-0.526) was similar to survival in Fort Hood's rural landscape (0.396, 95% CI = 0.261-0.528). Both landscapes likely support self-sustaining populations based on reasonable assumptions for adult survival and number of nesting attempts. We suggest that some large urban preserves can provide breeding habitat of comparable quality to rural locations and recommend protecting large parcels (>100 ha) of breeding habitat with limited fragmentation and reducing the amount of wooded edge abutting open habitat to ensure nest survival regardless of their landscape context.     

A land snail's view of a fragmented landscape

Habitat fragmentation may influence the genetic structure of populations, especially of species with low mobility. So far, these effects have been mainly studied by surveying neutral markers, and much less by looking at ecologically relevant characters. Therefore, we aimed to explore eventual patterns of covariation between population structuring in neutral markers and variation in shell morphometrics in the forest‐associated snail Discus rotundatus in relation to habitat fragment characteristics. To this end, we screened shell morphometric variability and sequence variation in a fragment of the mitochondrial 16S rDNA gene in D. rotundatus from the fragmented landscape of the Lower Rhine Embayment, Germany. The 16S rDNA of D. rotundatus was highly variable, with a total of 118 haplotypes (384 individuals) forming four clades and one unresolved group. There was a geographic pattern in the distribution of the clades with the river Rhine apparently separating two groups. Yet, at the geographic scale considered, there was no obvious effect of fragmentation on shell morphometrics and 16S rDNA variation because G_ST often was as high within, as between forests. Instead, the age of the habitat and (re‐)afforestation events appeared to affect shell shape and 16S rDNA in terms of the number of clades per site. The ecologically relevant characters thus supported the presumably neutral mitochondrial DNA markers by indicating that populations of not strictly stenecious species may be (relatively) stable in fragments. However, afforestation after large clearcuts and habitat gain after the amendment of deforestation are accompanied by several, seemingly persistent peculiarities, such as altered genetic composition and shell characters (e.g. aperture size). © 2009 The Linnean Society of London, Biological Journal of the Linnean Society, 2009, 98 , 839–850.