Browsing by Author "Xu, Dong"

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    Genetic variants in root architecture-related genes in a Glycine soja accession, a potential resource to improve cultivated soybean
    Prince, Silvas J.; Li, Song; Qiu, Dan; Maldonado dos Santos, Joao V.; Chai, Chenglin; Joshi, Trupti; Patil, Gunvant; Valliyodan, Babu; Vuong, Tri D.; Murphy, Mackensie; Krampis, Konstantinos; Tucker, Dominic M.; Biyashev, Ruslan M.; Dorrance, Anne E.; Saghai-Maroof, Mohammad A.; Xu, Dong; Shannon, J. Grover; Nguyen, Henry T. (2015-02-25)
    Background Root system architecture is important for water acquisition and nutrient acquisition for all crops. In soybean breeding programs, wild soybean alleles have been used successfully to enhance yield and seed composition traits, but have never been investigated to improve root system architecture. Therefore, in this study, high-density single-feature polymorphic markers and simple sequence repeats were used to map quantitative trait loci (QTLs) governing root system architecture in an inter-specific soybean mapping population developed from a cross between Glycine max and Glycine soja. Results Wild and cultivated soybean both contributed alleles towards significant additive large effect QTLs on chromosome 6 and 7 for a longer total root length and root distribution, respectively. Epistatic effect QTLs were also identified for taproot length, average diameter, and root distribution. These root traits will influence the water and nutrient uptake in soybean. Two cell division-related genes (D type cyclin and auxin efflux carrier protein) with insertion/deletion variations might contribute to the shorter root phenotypes observed in G. soja compared with cultivated soybean. Based on the location of the QTLs and sequence information from a second G. soja accession, three genes (slow anion channel associated 1 like, Auxin responsive NEDD8-activating complex and peroxidase), each with a non-synonymous single nucleotide polymorphism mutation were identified, which may also contribute to changes in root architecture in the cultivated soybean. In addition, Apoptosis inhibitor 5-like on chromosome 7 and slow anion channel associated 1-like on chromosome 15 had epistatic interactions for taproot length QTLs in soybean. Conclusion Rare alleles from a G. soja accession are expected to enhance our understanding of the genetic components involved in root architecture traits, and could be combined to improve root system and drought adaptation in soybean.
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    Hardware-based Parallel Simulation of Flexible Manufacturing Systems
    Xu, Dong (Virginia Tech, 2001-07-16)
    This research explores a hardware-based parallel simulation mechanism that can dramatically improve the speed of simulating flexible manufacturing systems (FMS) by applying appropriate enabling hardware technologies. The hardware-based parallel simulation refers to running a simulation on a multi-microprocessor integrated circuit board, called the simulator, which is specifically designed for the purpose of simulating a specific FMS. The board is composed of a collection of micro-emulators capable of mimicking the operation of equipment in FMS such as machining centers, transporters, and load/unload stations. To design possible architectures for the board, a mapping technology is applied by making use of the physical layout information of an FMS. Under such a mapping method, the simulation model is decomposed into a cluster of micro emulator on the board where each workstation is represented by one micro emulator. Three potential architectures for the proposed simulator, namely, the bus-based architecture, the shared-memory based architecture, and the parallel I/O port based architecture, are studied. To provide a suitable parallel computing platform, a prototype simulator based on the combination of the shared-memory and the parallel I/O port architecture is physically built. Besides the development of the hardware simulator, a time scaling simulation method is also developed for execution on the proposed simulator. The method uses the on-board digital clock to synchronize the parallel simulation being performed on different microprocessors. The advantage of the time scaling technology is that the sequence of simulation events is sorted naturally in consistent with the real events. In this way, no entangled waiting is needed as in the conservative parallel simulation methods so as to reduce the synchronization overhead and the danger of having deadlock. Experiments on the prototype simulator show that the time scaling simulation method, combined with the unique hardware features of the FMS specific simulator, achieves a large speedup compared to conventional software-based simulation methods.