69 Works

Data from: Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement

Jennifer E. Spindel, Hasina Begum, Deniz Akdemir, Bertrand Collard, Edilberto Redoña, Jean-Luc Jannink & Susan McCouch
To address the multiple challenges to food security posed by global climate change, population growth and rising incomes, plant breeders are developing new crop varieties that can enhance both agricultural productivity and environmental sustainability. Current breeding practices, however, are unable to keep pace with demand. Genomic selection (GS) is a new technique that helps accelerate the rate of genetic gain in breeding by using whole-genome data to predict the breeding value of offspring. Here, we...

Data from: Cell wall composition and bioenergy potential of rice straw tissues are influenced by environment, tissue type, and genotype

Paul Tanger, Miguel E. Vega-Sánchez, Margaret Fleming, Kim Tran, Seema Singh, James B. Abrahamson, Courtney E. Jahn, Nicholas Santoro, Elizabeth B. Naredo, Marietta Baraoidan, John M. C. Danku, David E. Salt, Kenneth L. McNally, Blake A. Simmons, Pamela C. Ronald, Hei Leung, Daniel R. Bush, John K. McKay & Jan E. Leach
Breeding has transformed wild plant species into modern crops, increasing the allocation of their photosynthetic assimilate into grain, fiber, and other products for human use. Despite progress in increasing the harvest index, much of the biomass of crop plants is not utilized. Potential uses for the large amounts of agricultural residues that accumulate are animal fodder or bioenergy, though these may not be economically viable without additional efforts such as targeted breeding or improved processing....

Data from: A novel resistance gene for bacterial blight in rice, Xa43(t) identified by GWAS and confirmed by QTL mapping using a bi-parental population

Suk-Man Kim & Russell F. Reinke
Bacterial blight (BB) caused by the Xanthomonas oryzae pv. oryzae (Xoo) pathogen is a significant disease in most rice cultivation areas. The disease is estimated to cause annual rice production losses of 20–30 percent throughout rice-growing countries in Asia. The discovery and deployment of durable resistance genes for BB is an effective and sustainable means of mitigating production losses. In this study QTL analysis and fine mapping were performed using an F2 and a BC2F2...

Data from: New records of very high nitrous oxide fluxes from rice cannot be generalized for water management and climate impacts

Reiner Wassmann, Bjoern Ole Sander, Sudhir Yadav, Bas Bouman, Grant Singleton, Alexander Stuart, Jonathan Hellin, David Johnson, Jacqueline Hughes, Klaus Butterbach-Bahl, Ralf Kiese, David Kraus, Baldur Janz, Bruce Linquist, Yam Kanta Gaihre, Ngonidzashe Chirinda & Eva Wollenberg
This supplement aims to substantiate and expand our comments made in the Letter to the Editor. This format as a separate document was necessary due to the complexity of the issues raised in our comments vis-à-vis the word limit of PNAS Letters (500 words). The text elaborates on individual concerns raised in the letter and also adds new aspects on the research quality that have not yet been discussed in the letter. Moreover, the supplement...

Additional file 26 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 26

Additional file 12 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 12

Additional file 11 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 11

Additional file 13 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 13

Additional file 14 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 14

New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Abstract Background Recurrent selection is a foundational breeding method for quantitative trait improvement. It typically features rapid breeding cycles that can lead to high rates of genetic gain. Usually, generations are discrete in recurrent selection, which means that breeding candidates are evaluated and considered for selection for only one cycle. Alternately, generations can overlap, with breeding candidates considered for selection as parents for multiple cycles. With recurrent genomic selection but not phenotypic selection, candidates can...

Additional file 17 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 17

Additional file 19 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 19

Positive and negative interspecific interactions between coexisting rice planthoppers neutralize the effects of elevated temperatures

Finbarr Horgan, Finbarr Horgan, Arriza Arida, Goli Ardestani & Maria Liberty Almazan
Global warming is often predicted to increase damage to plants through direct effects on insect herbivores. However, the indirect impacts of rising temperatures on herbivores, mediated through interactions with their biotic environment, could dampen these effects. Using a series of reciprocal density experiments with gravid females and developing nymphs, we examined interspecific competition between two coexisting phloem feeders, Nilaparvata lugens (BPH) and Sogatella furcifera (WBPH), on rice at 25°C and 30°C. WBPH performed better (i.e.,...

Data from: Landscape composition, configuration, and trophic interactions shape arthropod communities in rice agroecosystems

Christophe Dominik, Ralf Seppelt, Finbarr G. Horgan, Josef Settele & Tomáš Václavík
1. Increasing landscape heterogeneity of agroecosystems can enhance natural enemy populations and promote biological control. However, little is known about the multi-scale effects of landscape heterogeneity on arthropod communities in rice agroecosystems, especially in combination with trophic interactions. 2. We examined for the first time how landscape heterogeneity, measured by four independent metrics of landscape composition and configuration at three spatial scales, affected species abundance and species richness of rice arthropods within four functional groups...

Data from: A phantom ultrasonic insect chorus repels low-flying bats, but most are undeterred

Jodi Sedlock, Dylan Gomes, Sarah Woody, Buyung Hadi & Jesse Barber
Abstract 1. The acoustic environment can serve as a niche axis, structuring animal behaviour by providing or obscuring salient information. Meadow katydid choruses occupy the ultrasonic, less studied, realm of this acoustic milieu, form dense populations in some habitats, and present a potential sensory challenge to co-occurring ultrasonic-hearing animals. Aerial-hawking insectivorous bats foraging immediately over vegetation must listen for echoes of their prey and other cues amidst the chorus din. 2. We experimentally created the...

Additional file 8 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 8

Additional file 19 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 19

Additional file 20 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 20

Additional file 25 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 25

Additional file 27 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 27

Additional file 2 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 2

Additional file 3 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 3

Additional file 4 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 4

Additional file 7 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 7

Additional file 12 of New cycle, same old mistakes? Overlapping vs. discrete generations in long-term recurrent selection

Marlee R. Labroo & Jessica E. Rutkoski
Supplementary Material 12

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