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Towards a deeper haplotype mining of complex traits in rice with RFGB v2.0.
Published in:
Plant Biotechnology Journal, 2020, v. 18, n. 1, p. 14, doi. 10.1111/pbi.13215
By:
- Wang, Chun‐Chao;
- Yu, Hong;
- Huang, Ji;
- Wang, Wen‐Sheng;
- Faruquee, Muhiuddin;
- Zhang, Fan;
- Zhao, Xiu‐Qin;
- Fu, Bin‐Ying;
- Chen, Kai;
- Zhang, Hong‐Liang;
- Tai, Shuai‐Shuai;
- Wei, Chaochun;
- McNally, Kenneth L.;
- Alexandrov, Nickolai;
- Gao, Xiu‐Ying;
- Li, Jiayang;
- Li, Zhi‐Kang;
- Xu, Jian‐Long;
- Zheng, Tian‐Qing
Publication type:
Article
New allelic variants found in key rice salt-tolerance genes: an association study.
Published in:
Plant Biotechnology Journal, 2013, v. 11, n. 1, p. 87, doi. 10.1111/pbi.12010
By:
- Negrão, Sónia;
- Cecília Almadanim, M.;
- Pires, Inês S.;
- Abreu, Isabel A.;
- Maroco, João;
- Courtois, Brigitte;
- Gregorio, Glenn B.;
- McNally, Kenneth L.;
- Margarida Oliveira, M.
Publication type:
Article
SMALL-SUBUNIT RIBOSOMAL DNA SEQUENCE ANALYSES AND A RECONSTRUCTION OF THE INFERRED PHYLOGENY AMONG SYMBIOTIC DINOFLAGELLATES (PYRROPHYTA).
Published in:
Journal of Phycology, 1994, v. 30, n. 2, p. 316, doi. 10.1111/j.0022-3646.1994.00316.x
By:
- McNally, Kenneth L.;
- Govind, Nadathur S.;
- Thomé, Patricia E.;
- Trench, Robert K.
Publication type:
Article
Identification of the rice Rc gene as a main regulator of seed survival under dry storage conditions.
Published in:
Plant, Cell & Environment, 2023, v. 46, n. 6, p. 1962, doi. 10.1111/pce.14581
By:
- Prasad C. T., Manjunath;
- Kodde, Jan;
- Angenent, Gerco C.;
- Hay, Fiona R.;
- McNally, Kenneth L.;
- Groot, Steven P. C.
Publication type:
Article
Aus rice root architecture variation contributing to grain yield under drought suggests a key role of nodal root diameter class.
Published in:
Plant, Cell & Environment, 2022, v. 45, n. 3, p. 854, doi. 10.1111/pce.14272
By:
- Liao, Qiong;
- Chebotarov, Dmytro;
- Islam, Mohammad S.;
- Quintana, Marinell R.;
- Natividad, Mignon A.;
- De Ocampo, Marjorie;
- Beredo, Joseph C.;
- Torres, Rolando O.;
- Zhang, Zhenhua;
- Song, Haixing;
- Price, Adam H.;
- McNally, Kenneth L.;
- Henry, Amelia
Publication type:
Article
Leaf morphology, rather than plant water status, underlies genetic variation of rice leaf rolling under drought.
Published in:
Plant, Cell & Environment, 2019, v. 42, n. 5, p. 1532, doi. 10.1111/pce.13514
By:
- Cal, Andrew J.;
- Sanciangco, Millicent;
- Rebolledo, Maria Camila;
- Luquet, Delphine;
- Torres, Rolando O.;
- McNally, Kenneth L.;
- Henry, Amelia
Publication type:
Article
Rice SNP-seek database update: new SNPs, indels, and queries.
Published in:
Nucleic Acids Research, 2017, v. 45, n. D1, p. D1075, doi. 10.1093/nar/gkw1135
By:
- Mansueto, Locedie;
- Fuentes, Roven Rommel;
- Borja, Frances Nikki;
- Detras, Jeffery;
- Abriol-Santos, Juan Miguel;
- Chebotarov, Dmytro;
- Sanciangco, Millicent;
- Palis, Kevin;
- Copetti, Dario;
- Poliakov, Alexandre;
- Dubchak, Inna;
- Solovyev, Victor;
- Wing, Rod A.;
- Sackville Hamilton, Ruaraidh;
- Mauleon, Ramil;
- McNally, Kenneth L.;
- Alexandrov, Nickolai
Publication type:
Article
SNP-Seek database of SNPs derived from 3000 rice genomes.
Published in:
Nucleic Acids Research, 2015, v. 43, n. D1, p. D1023, doi. 10.1093/nar/gku1039
By:
- Alexandrov, Nickolai;
- Tai, Shuaishuai;
- Wang, Wensheng;
- Mansueto, Locedie;
- Palis, Kevin;
- Fuentes, Roven Rommel;
- Ulat, Victor Jun;
- Chebotarov, Dmytro;
- Zhang, Gengyun;
- Li, Zhikang;
- Mauleon, Ramil;
- Hamilton, Ruaraidh Sackville;
- McNally, Kenneth L.
Publication type:
Article
Rice Molecular Breeding Laboratories in the Genomics Era: Current Status and Future Considerations.
Published in:
International Journal of Plant Genomics, 2008, v. 2008, p. 1, doi. 10.1155/2008/524847
By:
- Collard, Bert C. Y.;
- Vera Cruz, Casiana M.;
- McNally, Kenneth L.;
- Virk, Parminder S.;
- Mackill, David J.
Publication type:
Article
Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice.
Published in:
Scientific Reports, 2017, p. 42839, doi. 10.1038/srep42839
By:
- Tanger, Paul;
- Klassen, Stephen;
- Mojica, Julius P.;
- Lovell, John T.;
- Moyers, Brook T.;
- Baraoidan, Marietta;
- Naredo, Maria Elizabeth B.;
- McNally, Kenneth L.;
- Poland, Jesse;
- Bush, Daniel R.;
- Leung, Hei;
- Leach, Jan E.;
- McKay, John K.
Publication type:
Article
Nucleotide diversity analysis highlights functionally important genomic regions.
Published in:
Scientific Reports, 2016, p. 35730, doi. 10.1038/srep35730
By:
- Tatarinova, Tatiana V.;
- Chekalin, Evgeny;
- Nikolsky, Yuri;
- Bruskin, Sergey;
- Chebotarov, Dmitry;
- McNally, Kenneth L.;
- Alexandrov, Nickolai
Publication type:
Article
Migration, isolation and hybridization in island crop populations: the case of Madagascar rice K. A. MATHER ET AL. POPULATION GENETICS OF MADAGASCAR RICE.
Published in:
Molecular Ecology, 2010, v. 19, n. 22, p. 4892, doi. 10.1111/j.1365-294X.2010.04845.x
By:
- Mather, Kristie A.;
- Molina, Jeanmaire;
- Flowers, Jonathan M.;
- Rubinstein, Samara;
- Rauh, Brad L.;
- Lawton-Rauh, Amy;
- Caicedo, Ana L.;
- McNally, Kenneth L.;
- Purugganan, Michael D.
Publication type:
Article
Editorial: Reproductive Barriers and Gene Introgression in Rice Species.
Published in:
2021
By:
- Tao, Dayun;
- McNally, Kenneth L.;
- Koide, Yohei;
- Matsubara, Kazuki
Publication type:
Editorial
Variation in seed longevity among diverse Indica rice varieties.
Published in:
Annals of Botany, 2019, v. 124, n. 3, p. 447, doi. 10.1093/aob/mcz093
By:
- Lee, Jae-Sung;
- Velasco-Punzalan, Marlina;
- Pacleb, Myrish;
- Valdez, Rocel;
- Kretzschmar, Tobias;
- McNally, Kenneth L;
- Ismail, Abdel M;
- Cruz, Pompe C Sta;
- Hamilton, N Ruaraidh Sackville;
- Hay, Fiona R
Publication type:
Article
Phenotypic response of farmer‐selected CWR‐derived rice lines to salt stress in the Mekong Delta.
Published in:
Crop Science, 2021, v. 61, n. 1, p. 201, doi. 10.1002/csc2.20354
By:
- Tin, Huynh Quang;
- Loi, Nguyen Huu;
- Labarosa, Sandy Jan E.;
- McNally, Kenneth L.;
- McCouch, Susan;
- Kilian, Benjamin
Publication type:
Article
Revealing sequence variation patterns in rice with machine learning methods.
Published in:
BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-S10-O8
By:
- Bohnert, Regina;
- Zeller, Georg;
- Clark, Richard M.;
- Childs, Kevin L.;
- Ulat, Victor;
- Stokowski, Renee;
- Ballinger, Dennis;
- Frazer, Kelly;
- Cox, David;
- Bruskiewich, Richard;
- Buell, C. Robin;
- Leach, Jan;
- Hei Leung;
- McNally, Kenneth L.;
- Weigel, Detlef;
- Rätsch, Gunnar
Publication type:
Article
Response of Southeast Asian rice root architecture and anatomy phenotypes to drought stress.
Published in:
Frontiers in Plant Science, 2022, v. 13, p. 1, doi. 10.3389/fpls.2022.1008954
By:
- Siangliw, Jonaliza L.;
- Thunnom, Burin;
- Natividad, Mignon A.;
- Quintana, Marinell R.;
- Chebotarov, Dmytro;
- McNally, Kenneth L.;
- Lynch, Jonathan P.;
- Brown, Kathleen M.;
- Henry, Amelia
Publication type:
Article
Editorial: Reproductive Barriers and Gene Introgression in Rice Species, Volume II.
Published in:
Frontiers in Plant Science, 2022, v. 13, p. 1, doi. 10.3389/fpls.2022.974613
By:
- Yohei Koide;
- Kazuki Matsubara;
- Dayun Tao;
- McNally, Kenneth L.
Publication type:
Article
Phenotypic Variation and the Impact of Admixture in the Oryza rufipogon Species Complex (ORSC).
Published in:
Frontiers in Plant Science, 2022, v. 13, p. 1, doi. 10.3389/fpls.2022.787703
By:
- Eizenga, Georgia C.;
- Kim, HyunJung;
- Jung, Janelle K. H.;
- Greenberg, Anthony J.;
- Edwards, Jeremy D.;
- Naredo, Maria Elizabeth B.;
- Banaticla-Hilario, Maria Celeste N.;
- Harrington, Sandra E.;
- Shi, Yuxin;
- Kimball, Jennifer A.;
- Harper, Lisa A.;
- McNally, Kenneth L.;
- McCouch, Susan R.
Publication type:
Article
GENOMICS OF GENE BANKS: A CASE STUDY IN RICE.
Published in:
American Journal of Botany, 2012, v. 99, n. 2, p. 407, doi. 10.3732/ajb.1100385
By:
- McCouch, Susan R.;
- McNally, Kenneth L.;
- Wen Wang;
- Hamilton, Ruaraidh Sackville
Publication type:
Article
Structure, allelic diversity and selection of Asr genes, candidate for drought tolerance, in Oryza sativa L. and wild relatives.
Published in:
Theoretical & Applied Genetics, 2010, v. 121, n. 4, p. 769, doi. 10.1007/s00122-010-1348-z
By:
- Philippe, Romain;
- Courtois, Brigitte;
- McNally, Kenneth L.;
- Mournet, Pierre;
- El-Malki, Redouane;
- Le Paslier, Marie Christophe;
- Fabre, Denis;
- Billot, Claire;
- Brunel, Dominique;
- Glaszmann, Jean-Christophe;
- This, Dominique
Publication type:
Article
Development of a Core Set from a Large Rice Collection using a Modified Heuristic Algorithm to Retain Maximum Diversity.
Published in:
Journal of Integrative Plant Biology, 2009, v. 51, n. 12, p. 1116, doi. 10.1111/j.1744-7909.2009.00882.x
By:
- Chung, Hun‐Ki;
- Kim, Kyu‐Won;
- Chung, Jong‐Wook;
- Lee, Jung‐Ro;
- Lee, Sok‐Young;
- Dixit, Anupam;
- Kang, Hee‐Kyoung;
- Zhao, Weiguo;
- McNally, Kenneth L.;
- Hamilton, Ruraidh S.;
- Gwag, Jae‐Gyun;
- Park, Yong‐Jin
Publication type:
Article
Progress in single-access information systems for wheat and rice crop improvement.
Published in:
Briefings in Bioinformatics, 2019, v. 20, n. 2, p. 565, doi. 10.1093/bib/bby016
By:
- Scheben, Armin;
- Chan, Chon-Kit Kenneth;
- Mansueto, Locedie;
- Mauleon, Ramil;
- Larmande, Pierre;
- Alexandrov, Nickolai;
- Wing, Rod A;
- McNally, Kenneth L;
- Quesneville, Hadi;
- Edwards, David
Publication type:
Article
Molecular dissection of connected rice populations revealed important genomic regions for agronomic and biofortification traits.
Published in:
Frontiers in Plant Science, 2023, v. 14, p. 1, doi. 10.3389/fpls.2023.1157507
By:
- Palanog, Alvin D.;
- Chau Thanh Nha;
- Descalsota-Empleo, Gwen Iris L.;
- Calayugan, Mark Ian;
- Zin Mar Swe;
- Amparado, Amery;
- Inabangan-Asilo, Mary Ann;
- Hernandez, Jose E.;
- Cruz, Pompe C. Sta.;
- Borromeo, Teresita H.;
- Lalusin, Antonio G.;
- Mauleon, Ramil;
- McNally, Kenneth L.;
- Swamy, B. P. Mallikarjuna
Publication type:
Article
Genetic Loci Governing Grain Yield and Root Development under Variable Rice Cultivation Conditions.
Published in:
Frontiers in Plant Science, 2017, p. 1, doi. 10.3389/fpls.2017.01763
By:
- Catolos, Margaret;
- Sandhu, Nitika;
- Dixit, Shalabh;
- Shamsudin, Noraziya A. A.;
- Naredo, Ma E. B.;
- McNally, Kenneth L.;
- Henry, Amelia;
- Diaz, Ma G.;
- Kumar, Arvind
Publication type:
Article
Corrigendum: Open access resources for genome-wide association mapping in rice.
Published in:
Nature Communications, 2016, v. 7, n. 4, p. 11346, doi. 10.1038/ncomms11346
By:
- McCouch, Susan R.;
- Wright, Mark H.;
- Tung, Chih-Wei;
- Maron, Lyza G.;
- McNally, Kenneth L.;
- Fitzgerald, Melissa;
- Singh, Namrata;
- DeClerck, Genevieve;
- Perez, Francisco Agosto;
- Korniliev, Pavel;
- Greenberg, Anthony J.;
- Naredo, Ma. Elizabeth B.;
- Mercado, Sheila Mae Q.;
- Harrington, Sandra E.;
- Shi, Yuxin;
- Branchini, Darcy A.;
- Kuser-Falcão, Paula R.;
- Leung, Hei;
- Ebana, Kowaru;
- Yano, Masahiro
Publication type:
Article
Open access resources for genome-wide association mapping in rice.
Published in:
Nature Communications, 2016, v. 7, n. 2, p. 10532, doi. 10.1038/ncomms10532
By:
- McCouch, Susan R.;
- Wright, Mark H.;
- Tung, Chih-Wei;
- Maron, Lyza G.;
- McNally, Kenneth L.;
- Fitzgerald, Melissa;
- Singh, Namrata;
- DeClerck, Genevieve;
- Agosto-Perez, Francisco;
- Korniliev, Pavel;
- Greenberg, Anthony J.;
- Naredo, Ma. Elizabeth B.;
- Mercado, Sheila Mae Q.;
- Harrington, Sandra E.;
- Shi, Yuxin;
- Branchini, Darcy A.;
- Kuser-Falcão, Paula R.;
- Leung, Hei;
- Ebana, Kowaru;
- Yano, Masahiro
Publication type:
Article
Traces of Introgression from cAus into Tropical Japonica Observed in African Upland Rice Varieties.
Published in:
Rice (19398425), 2023, v. 16, n. 1, p. 1, doi. 10.1186/s12284-023-00625-4
By:
- Beye, Abdoulaye;
- Billot, Claire;
- Ronfort, Joëlle;
- McNally, Kenneth L.;
- Diouf, Diaga;
- Glaszmann, Jean Christophe
Publication type:
Article
Fine Scale Genomic Signals of Admixture and Alien Introgression among Asian Rice Landraces.
Published in:
Genome Biology & Evolution, 2019, v. 11, n. 5, p. 1358, doi. 10.1093/gbe/evz084
By:
- Santos, João D;
- Chebotarov, Dmytro;
- McNally, Kenneth L;
- Bartholomé, Jérôme;
- Droc, Gaëtan;
- Billot, Claire;
- Glaszmann, Jean Christophe
Publication type:
Article
Tools for using the International Rice Genebank to breed for climate-resilient varieties.
Published in:
PLoS Biology, 2023, v. 21, n. 7, p. 1, doi. 10.1371/journal.pbio.3002215
By:
- McNally, Kenneth L.;
- Henry, Amelia
Publication type:
Article
Upland Rice: Cultural Keystone Species in a Philippine Traditional Agroecosystem.
Published in:
Asian Journal of Agriculture & Development, 2020, v. 17, n. 2, p. 93, doi. 10.37801/ajad2020.17.2.6
By:
- Zapico, Florence L.;
- Dizon, Josefina T.;
- Fernando, Edwino S.;
- Borromeo, Teresita H.;
- McNally, Kenneth L.;
- Hernandez, Jose E.
Publication type:
Article
Genome Wide Association Mapping of Grain and Straw Biomass Traits in the Rice Bengal and Assam Aus Panel (BAAP) Grown Under Alternate Wetting and Drying and Permanently Flooded Irrigation.
Published in:
Frontiers in Plant Science, 2018, p. N.PAG, doi. 10.3389/fpls.2018.01223
By:
- Norton, Gareth J.;
- Travis, Anthony J.;
- Douglas, Alex;
- Fairley, Susan;
- Alves, Eduardo De Paiva;
- Ruang-areerate, Panthita;
- Naredo, Ma. Elizabeth B.;
- McNally, Kenneth L.;
- Hossain, Mahmud;
- Islam, Md. Rafiqul;
- Price, Adam H.
Publication type:
Article
An imputation platform to enhance integration of rice genetic resources.
Published in:
Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-05538-1
By:
- Wang, Diane R.;
- Agosto-Pérez, Francisco J.;
- Chebotarov, Dmytro;
- Shi, Yuxin;
- Marchini, Jonathan;
- Fitzgerald, Melissa;
- McNally, Kenneth L.;
- Alexandrov, Nickolai;
- McCouch, Susan R.
Publication type:
Article
Genetic Variation in Biomass Traits among 20 Diverse Rice Varieties.
Published in:
Plant Physiology, 2011, v. 155, n. 1, p. 157, doi. 10.1104/pp.110.165654
By:
- Jahn, Courtney E.;
- Mckay, John K.;
- Mauleon, Ramil;
- Stephens, Janice;
- McNally, Kenneth L.;
- Bush, Daniel R.;
- Leung, Hei;
- Leach, Jan E.
Publication type:
Article
Genetic erosion in traditional rice agro-ecosystems in Southern Philippines: drivers and consequences.
Published in:
Plant Genetic Resources: Characterisation & Utilisation, 2020, v. 18, n. 1, p. 1, doi. 10.1017/S1479262119000406
By:
- Zapico, Florence L.;
- Dizon, Josefina T.;
- Borromeo, Teresita H.;
- McNally, Kenneth L.;
- Fernando, Edwino S.;
- Hernandez, Jose E.
Publication type:
Article
A high-performance computational workflow to accelerate GATK SNP detection across a 25-genome dataset.
Published in:
BMC Biology, 2024, v. 22, n. 1, p. 1, doi. 10.1186/s12915-024-01820-5
By:
- Zhou, Yong;
- Kathiresan, Nagarajan;
- Yu, Zhichao;
- Rivera, Luis F.;
- Yang, Yujian;
- Thimma, Manjula;
- Manickam, Keerthana;
- Chebotarov, Dmytro;
- Mauleon, Ramil;
- Chougule, Kapeel;
- Wei, Sharon;
- Gao, Tingting;
- Green, Carl D.;
- Zuccolo, Andrea;
- Xie, Weibo;
- Ware, Doreen;
- Zhang, Jianwei;
- McNally, Kenneth L.;
- Wing, Rod A.
Publication type:
Article
Novel Sources of Pre-Harvest Sprouting Resistance for Japonica Rice Improvement.
Published in:
Plants (2223-7747), 2021, v. 10, n. 8, p. 1709, doi. 10.3390/plants10081709
By:
- Lee, Jae-Sung;
- Chebotarov, Dmytro;
- McNally, Kenneth L.;
- Pede, Valerien;
- Setiyono, Tri Deri;
- Raquid, Rency;
- Hyun, Woong-Jo;
- Jeung, Ji-Ung;
- Kohli, Ajay;
- Mo, Youngjun
Publication type:
Article
Local differentiation amidst extensive allele sharing in Oryza nivara and O. rufipogon.
Published in:
Ecology & Evolution (20457758), 2013, v. 3, n. 9, p. 3047, doi. 10.1002/ece3.689
By:
- Banaticla-Hilario, Maria Celeste N.;
- Berg, Ronald G.;
- Hamilton, Nigel Ruaraidh Sackville;
- McNally, Kenneth L.
Publication type:
Article

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