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Oryza longistaminata

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https://www.readbyqxmd.com/read/29740707/sucrose-affects-the-developmental-transition-of-rhizomes-in-oryza-longistaminata
#1
Kanako Bessho-Uehara, Jovano Erris Nugroho, Hirono Kondo, Rosalyn B Angeles-Shim, Motoyuki Ashikari
Oryza longistaminata, the African wild rice, can propagate vegetatively through rhizomes. Rhizomes elongate horizontally underground as sink organs, however, they undergo a developmental transition that shifts their growth to the surface of the ground to become aerial stems. This particular stage is essential for the establishment of new ramets. While several determinants such as abiotic stimuli and plant hormones have been reported as key factors effecting developmental transition in aerial stem, the cause of this phenomenon in rhizome remains elusive...
May 8, 2018: Journal of Plant Research
https://www.readbyqxmd.com/read/29346504/baum-improving-genome-assembly-by-adaptive-unique-mapping-and-local-overlap-layout-consensus-approach
#2
Anqi Wang, Zhanyu Wang, Zheng Li, Lei M Li
Motivation: It is highly desirable to assemble genomes of high continuity and consistency at low cost. The current bottleneck of draft genome continuity using the Second Generation Sequencing (SGS) reads is primarily caused by uncertainty among repetitive sequences. Even though the Single-Molecule Real-Time sequencing technology is very promising to overcome the uncertainty issue, its relatively high cost and error rate add burden on budget or computation. Many long-read assemblers take the overlap-layout-consensus (OLC) paradigm, which is less sensitive to sequencing errors, heterozygosity and variability of coverage...
January 15, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29190752/differential-transcriptome-profiling-of-chilling-stress-response-between-shoots-and-rhizomes-of-oryza-longistaminata-using-rna-sequencing
#3
Ting Zhang, Liyu Huang, Yinxiao Wang, Wensheng Wang, Xiuqin Zhao, Shilai Zhang, Jing Zhang, Fengyi Hu, Binying Fu, Zhikang Li
Rice (Oryza sativa) is very sensitive to chilling stress at seedling and reproductive stages, whereas wild rice, O. longistaminata, tolerates non-freezing cold temperatures and has overwintering ability. Elucidating the molecular mechanisms of chilling tolerance (CT) in O. longistaminata should thus provide a basis for rice CT improvement through molecular breeding. In this study, high-throughput RNA sequencing was performed to profile global transcriptome alterations and crucial genes involved in response to long-term low temperature in O...
2017: PloS One
https://www.readbyqxmd.com/read/29161206/a-hypersensitivity-like-response-to-meloidogyne-graminicola-in-rice-oryza-sativa
#4
Ngan Thi Phan, Dirk De Waele, Mathias Lorieux, Lizhong Xiong, Stephane Bellafiore
Meloidogyne graminicola is a major plant-parasitic nematode affecting rice cultivation in Asia. Resistance to this nematode was found in the African rice genotypes Oryza glaberrima and O. longistaminata; however, due to interspecific hybrid sterility, the introgression of resistance genes in the widely consumed O. sativa varieties remains challenging. Recently, resistance was found in O. sativa and, here, we report for the first time the histological and genetic characterization of the resistance to M. graminicola in Zhonghua 11, an O...
April 2018: Phytopathology
https://www.readbyqxmd.com/read/29016662/fine-mapping-of-pi57-t-conferring-broad-spectrum-resistance-against-magnaporthe-oryzae-in-introgression-line-il-e1454-derived-from-oryza-longistaminata
#5
Liying Dong, Shufang Liu, Peng Xu, Wei Deng, Xundong Li, Didier Tharreau, Jing Li, Jiawu Zhou, Qun Wang, Dayun Tao, Qinzhong Yang
Wild species of the genus Oryza are excellent gene pools for improvement of agronomic traits of Asian cultivated rice. The blast resistance gene Pi57(t) in the introgression line IL-E1454 derived from Oryza longistaminata was previously mapped on rice chromosome 12. Inoculation with 322 Magnaporthe oryzae isolates collected from 6 countries indicated that Pi57(t) conferred broad spectrum resistance against M. oryzae. Two mapping populations consisting of 29070 and 10375 F2 plants derived from the crosses of resistant donor IL-E1454 with susceptible parents RD23 and Lijiangxintuanheigu respectively, were used for fine mapping of Pi57(t) locus...
2017: PloS One
https://www.readbyqxmd.com/read/28893199/comprehensive-survey-and-evolutionary-analysis-of-genome-wide-mirna-genes-from-ten-diploid-oryza-species
#6
Showkat Ahmad Ganie, Ananda Bhusan Debnath, Abubakar Mohammad Gumi, Tapan Kumar Mondal
BACKGROUND: MicroRNAs (miRNAs) are non-coding RNAs that play versatile roles in post-transcriptional gene regulation. Although much is known about their biogenesis, and gene regulation very little is known about their evolutionary relation among the closely related species. RESULT: All the orthologous miRNA genes of Oryza sativa (japonica) from 10 different Oryza species were identified, and the evolutionary changes among these genes were analysed. Significant differences in the expansion of miRNA gene families were observed across the Oryza species...
September 11, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28657614/genetic-analysis-of-a-hybrid-sterility-gene-that-causes-both-pollen-and-embryo-sac-sterility-in-hybrids-between-oryza-sativa-l-and-oryza-longistaminata
#7
H Chen, Z Zhao, L Liu, W Kong, Y Lin, S You, W Bai, Y Xiao, H Zheng, L Jiang, J Li, J Zhou, D Tao, J Wan
Oryza longistaminata originates from African wild rice and contains valuable traits conferring tolerance to biotic and abiotic stress. However, interspecific crosses between O. longistaminata and Oryza sativa cultivars are hindered by reproductive barriers. To dissect the mechanism of interspecific hybrid sterility, we developed a near-isogenic line (NIL) using indica variety RD23 as the recipient parent and O. longistaminata as the donor parent. Both pollen and embryo sac semi-sterility were observed in F1 hybrids between RD23 and NIL...
September 2017: Heredity
https://www.readbyqxmd.com/read/28505342/letter-to-the-editor-author-response-analysis-of-rhizome-development-in-oryza-longistaminata-a-wild-rice-species
#8
LETTER
Junko Kyozuka
No abstract text is available yet for this article.
August 1, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/28460115/letter-to-the-editor-bud-position-and-carbohydrate-play-a-more-significant-role-than-light-condition-in-the-developmental-transition-between-rhizome-buds-and-aerial-shoot-buds-of-oryza-longistaminata
#9
LETTER
Zhiquan Fan, Zhongquan Cai, Jianwei Shan, Jiangyi Yang
No abstract text is available yet for this article.
August 1, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/28163588/identification-of-qtls-for-yield-related-traits-in-rils-derived-from-the-cross-between-plia-1-carrying-oryza-longistaminata-chromosome-segments-and-norin-18-in-rice
#10
Emily Gichuhi, Eiko Himi, Hidekazu Takahashi, Sinhao Zhu, Kazuyuki Doi, Kazuo Tsugane, Masahiko Maekawa
To improve rice yield, a wide genetic pool is necessary. It is therefore important to explore wild rice relatives. Oryza longistaminata is a distantly related wild rice relative that carries the AA genome. Its potential for improving agronomic traits is not well studied. Introgression line (pLIA-1) that carries Oryza longistaminata's chromosome segments, showed high performance in yield-related traits under non-fertilized conditions. Therefore, to illustrate Oryza longistaminata's potential for improving yield-related traits, RILs from the F1 of a cross between pLIA-1 and Norin 18 were developed and QTL analysis was done using the RAD-Seq method...
December 2016: Breeding Science
https://www.readbyqxmd.com/read/27516415/analysis-of-rhizome-development-in-oryza-longistaminata-a-wild-rice-species
#11
Akiko Yoshida, Yasuhiko Terada, Taiyo Toriba, Katsumi Kose, Motoyuki Ashikari, Junko Kyozuka
Vegetative reproduction is a form of asexual propagation in plants. A wide range of plants develop rhizomes, modified stems that grow underground horizontally, as a means of vegetative reproduction. In rhizomatous species, despite their distinct developmental patterns, both rhizomes and aerial shoots derive from axillary buds. Therefore, it is of interest to understand the basis of rhizome initiation and development. Oryza longistaminata, a wild rice species, develops rhizomes. We analyzed bud initiation and growth of O...
October 2016: Plant & Cell Physiology
https://www.readbyqxmd.com/read/26687860/inconsistent-diversities-between-nuclear-and-plastid-genomes-of-aa-genome-species-in-the-genus-oryza
#12
Hao Yin, Masahiro Akimoto, Reunreudee Kaewcheenchai, Masahiro Sotowa, Takashige Ishii, Ryuji Ishikawa
AA genome species in the genus Oryza are valuable resources for improvement of cultivated rice. Oryza rufipogon and O. barthii were progenitors of two domesticated rice species, O. sativa and O. glaberrima, respectively. We used chloroplast single-nucleotide repeats (RCt1-10) to evaluate genetic diversity among AA genome species. Higher diversity was detected in the American species O. glumaepatula and the Asian species O. rufipogon. Other chloroplast sequences indicated that O. glumaepatula shares high similarity with O...
2015: Genes & Genetic Systems
https://www.readbyqxmd.com/read/26366120/pcr-based-indel-markers-co-dominant-between-oryza-sativa-japonica-cultivars-and-closely-related-wild-oryza-species
#13
Mitsuru Niihama, Misato Mochizuki, Nori Kurata, Ken-Ichi Nonomura
Wild relatives genetically close to cultivars are precious genetic resources for plant breeding. Oryza rufipogon, O. barthii, O. glumaepatula, O. meridionalis and O. longistaminata are such wild species, and are also categorized as AA genome species based on their structural similarities. Chromosome segment substitution lines (CSSLs) are a powerful resource in breeding and genetics, and numerous rice CSSLs have been produced. This study aimed to develop DNA markers for evaluation of CSSLs directly by PCR and subsequent gel electrophoresis...
September 2015: Breeding Science
https://www.readbyqxmd.com/read/26355750/relationships-of-wild-and-domesticated-rices-oryza-aa-genome-species-based-upon-whole-chloroplast-genome-sequences
#14
Peterson W Wambugu, Marta Brozynska, Agnelo Furtado, Daniel L Waters, Robert J Henry
Rice is the most important crop in the world, acting as the staple food for over half of the world's population. The evolutionary relationships of cultivated rice and its wild relatives have remained contentious and inconclusive. Here we report on the use of whole chloroplast sequences to elucidate the evolutionary and phylogenetic relationships in the AA genome Oryza species, representing the primary gene pool of rice. This is the first study that has produced a well resolved and strongly supported phylogeny of the AA genome species...
2015: Scientific Reports
https://www.readbyqxmd.com/read/25666915/anther-development-of-maize-zea-mays-and-longstamen-rice-oryza-longistaminata-revealed-by-cryo-sem-with-foci-on-locular-dehydration-and-pollen-arrangement
#15
Chih-Hua Tsou, Ping-Chin Cheng, Chiung-Maan Tseng, Hsiao-Jung Yen, Yu-Lan Fu, Tien-Rong You, David B Walden
Key message: Pollen maturation in Poaceae. Another development has been extensively examined by various imaging tools, including transmission electron microscopy, scanning electron microscopy, and light microscopy, but none is capable of identifying liquid water. Cryo-scanning electron microscopy with high-pressure rapid freeze fixation is excellent in preserving structures at cellular level and differentiating gas- versus liquid-filled space, but rarely used in anther study. We applied this technique to examine anther development of Poaceae because of its economic importance and unusual peripheral arrangement of pollen...
March 2015: Plant Reproduction
https://www.readbyqxmd.com/read/25648443/comparative-proteomics-reveals-differential-induction-of-both-biotic-and-abiotic-stress-response-associated-proteins-in-rice-during-xanthomonas-oryzae-pv-oryzae-infection
#16
Anirudh Kumar, Waikhom Bimolata, Monica Kannan, P B Kirti, Insaf Ahmed Qureshi, Irfan Ahmad Ghazi
Xanthomonas oryzae pv. oryzae (Xoo) causes bacterial blight disease in rice and brutally affects the yield up to 50 % of total production. Here, we report a comparative proteomics analysis of total foliar protein isolated from infected rice leaves of susceptible Pusa Basmati 1 (PB1) and resistant Oryza longistaminata genotypes. Two-dimensional gel electrophoresis (2-DE) coupled with matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) approaches identified 29 protein spots encoding unique proteins from both the genotypes...
July 2015: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/24521476/a-systems-wide-comparison-of-red-rice-oryza-longistaminata-tissues-identifies-rhizome-specific-genes-and-proteins-that-are-targets-for-cultivated-rice-improvement
#17
Ruifeng He, Fernanda Salvato, Jeong-Jin Park, Min-Jeong Kim, William Nelson, Tiago S Balbuena, Mark Willer, John A Crow, Greg D May, Carol A Soderlund, Jay J Thelen, David R Gang
BACKGROUND: The rhizome, the original stem of land plants, enables species to invade new territory and is a critical component of perenniality, especially in grasses. Red rice (Oryza longistaminata) is a perennial wild rice species with many valuable traits that could be used to improve cultivated rice cultivars, including rhizomatousness, disease resistance and drought tolerance. Despite these features, little is known about the molecular mechanisms that contribute to rhizome growth, development and function in this plant...
2014: BMC Plant Biology
https://www.readbyqxmd.com/read/24227175/plant-regeneration-from-leaf-and-seed-derived-calli-and-suspension-cultures-of-the-african-perennial-wild-rice-oryza-longistaminata
#18
N Boissot, M Valdez, E Guiderdoni
Plant regeneration from 2-month-old callus cultures derived from immature leaves of 7-day-old aseptic seedlings and mature embryos of the African wild rice Oryza longistaminata was achieved at 20% and 100% frequency, respectively. The morphogenic potential of the embryo-derived calluses dropped from 100% at the third subculture to 12.5 % at the 12th subculture. Five-month-old morphogenic calluses were used to establish a fast-growing suspension culture which, when plated onto semisolid medium, still retained its ability to regenerate plantlets 9 months after initiation...
December 1990: Plant Cell Reports
https://www.readbyqxmd.com/read/24226124/ribosomal-gene-spacer-length-variability-in-cultivated-and-wild-rice-species
#19
F Cordesse, G Second, M Delseny
Restriction fragment length polymorphism of the rDNA spacer was studied in the genus Oryza using a cloned rice rDNA probe. One-hundred-five accessions, including 58 cultivated rice and 47 wild species with various genome types, were analysed. Seven size classes differing from one another by an "increment" of ca. 300 bp were observed amongst the Asiatic cultivated rice of the species O. sativa. A general tendency from a smaller spacer in the Japonica subtypes to longer ones in Indica is observed. Classification as Japonica or Indica on the basis of rDNA pattern generally agrees with classification based on isozyme patterns...
January 1990: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/24221388/phylogenetic-relationships-of-annual-and-perennial-wild-rice-probing-by-direct-dna-sequencing
#20
P Barbier, H Morishima, A Ishihama
The phylogenetic relationships between Asian wild rice strains were analyzed by direct sequencing of PCR-amplified DNA fragments. The sequence of three introns located in the phytochrome gene was determined for eight strains of the Asian wild rice, Oryza rufipogon, and one strain of the related African species, Oryza longistaminata. The number of nucleotide substitutions per site between various strains within a single species, O. rufipogon, ranged between 0.0017 and 0.0050, while those between two related species, O...
May 1991: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
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