Applying Genomics Tools for Breeding Submergence Tolerance in Rice - Translational Genomics for Crop Breeding: Abiotic Stress, Yield and Quality - page 27

journey from landrace to modern cultivar. Rice 3:138-
147.
Bailey-Serres J, Voesenek LACJ (2008) Flooding stress:
Acclimations and genetic diversity. Annual Review of
Plant Biology 59:313-339.
Barding GA, Jr., Fukao T, Beni S, Bailey-Serres J, Larive CK
(2012) Differential metabolic regulation governed by the
rice SUB1A gene during submergence stress and iden-
tification of alanylglycine by (1)H NMR spectroscopy.
Journal of Proteome Research 11:320-330.
Bernier J, Kumar A, Ramaiah V, Spaner D, Atlin G (2007) A
large-effect QTL for grain yield under reproductive-stage
drought stress in upland rice. Crop Science 47:507-518.
Biswas JK, Yamauchi M (1997) Mechanism of seedling
establishment of direct-seeded rice ( Oryza sativa
L.) under lowland conditions. Botanical Bulletin of
Academia Sinica 38:29-32.
Catling D (1992) Rice in deep water. International Rice
Research Institute, Manila, Philippines.
Chen S, Lin XH, Xu CG, Zhang QF (2000) Improvement
of bacterial blight resistance of 'Minghui 63', an elite
restorer line of hybrid rice, by molecular marker-assisted
selection. Crop Science 40:239-244.
Collard BCY, Mackill DJ (2008) Marker-assisted selection:
An approach for precision plant breeding in the twenty-
first century. Philosophical Transactions of the Royal
Society of London B Biological Sciences 363:557-572.
Das KK, Panda D, Sarkar RK, Reddy JN, Ismail AM (2009)
Submergence tolerance in relation to variable floodwa-
ter conditions in rice. Environmental and Experimental
Botany 66:425-434.
Das KK, Sarkar RK, Ismail AM (2005) Elongation ability
and non-structural carbohydrate levels in relation to sub-
mergence tolerance in rice. Plant Science 168:131-136.
Drew MC (1990) Sensing soil oxygen. Plant, Cell and Envi-
ronment 13:681-693
Ella ES, Kawano N, Yamauchi Y, Tanaka K, Ismail AM
(2003) Blocking ethylene perception enhances flooding
tolerance in rice seedlings. Functional Plant Biology
30:813-819.
Ella ES, Setter TL (1999) Importance of seed carbohydrates
in rice seedling establishment under anoxia. In: Proceed-
ings of the Sixth Symposium on Stand Establishment and
ISHS Seed Sympoisum, pp 209-216
Fukao T, Bailey-Serres J (2008) Submergence tolerance con-
ferred by Sub1A is mediated by SLR1 and SLRL1 restric-
tion of gibberellin responses in rice. Proceedings of the
National Academy of Sciences of the United States of
America 105:16814-16819.
Fukao T, Xu K, Ronald PC, Bailey-Serres J (2006) A variable
cluster of ethylene response factor-like genes regulates
metabolic and developmental acclimation responses to
submergence in rice. Plant Cell 18:2021-2034.
Fukao T, Yeung E, Bailey-Serres J (2011) The submergence
tolerance regulator SUB1A mediates crosstalk between
submergence and drought tolerance in rice. Plant Cell
23:412-427.

Gibbs DJ, Lee SC, Isa NM, Gramuglia S, Fukao T, Bassel
GW, Correia CS, Corbineau F, Theodoulou FL, Bailey-
Serres J, Holdsworth MJ (2011) Homeostatic response to
hypoxia is regulated by the N-end rule pathway in plants.
Nature 479:415-U172.
Gibbs J, Morrell S, Valdez A, Setter TL, Greenway T (2000)
Regulation of alcoholic fermentation in coleoptiles of two
rice cultivars differing in tolerance to anoxia. Journal of
Experimental Botany 51:785-796.
Greenway H, Setter TL (1996) Is there anaerobic metabolism
in submerged rice plants? A view point. In: Singh VP,
Singh RK, Singh BB, Zeigler RS (eds) Physiology
of stress tolerance in rice . Narendra Deva University
of Agriculture and Technology and International Rice
Research Institute, Manila, Philippines, pp 11-30.
Guglielminetti L, Yamaguchi J, Perata P, Alpi A (1995) Amy-
lolytic activities in cereal seeds under aerobic and anaer-
obic conditions. Plant Physiology 109:1069-1076.
Hattori Y, Miura K, Asano K, Yamamoto E, Mori H, Kitano
H, Matsuoka M, Ashikari M (2007) A major QTL confers
rapid internode elongation in response to water rise in
deepwater rice. Breeding Science 57:305-314.
Hattori Y, Nagai K, Furukawa S, Song XJ, Kawano R, Sakak-
ibara H, Wu JZ, Matsumoto T, Yoshimura A, Kitano
H, Matsuoka M, Mori H, Ashikari M (2009) The ethy-
lene response factors Snorkel1 and Snorkel2 allow rice
to adapt to deep water. Nature 460:1026-1031.
Hattori Y, Nagai K, Mori H, Kitano H, Matsuoka M, Ashikari
M (2008) Mapping of three QTLs that regulate intern-
ode elongation in deepwater rice. Breeding Science 58:
39-46.
Herzog E, Frisch M (2011) Selection strategies for marker-
assisted backcrossing with high-throughput marker sys-
tems. Theoretical and Applied Genetics 123:251-260.
Heuer S, Lu XC, Chin JH, Tanaka JP, Kanamori H, Mat-
sumoto T, De Leon T, Ulat VJ, Ismail AM, Yano M,
Wissuwa M (2009) Comparative sequence analyses of the
major quantitative trait locus phosphorus uptake 1 ( Pup1 )
reveal a complex genetic structure. Plant Biotechnology
Journal 7:456-471.
HilleRisLambers D, Seshu DV (1982) Some ideas on breed-
ing procedures and requirements for deepwater rice
improvement. In: Proceedings of the 1981 International
Deepwater Rice Workshop . International Rice Research
Institute, Los Ba nos, Philippines, pp 29-44.
HilleRisLambers D, Vergara BS (1982) Summary results of
an international collaboration on screening methods for
flood tolerance. In: Proceedings of the 1981 International
Deepwater Rice Workshop . International Rice Research
Institute, Manila, Philippines, pp 347-353.
Hospital F, Chevalet C, Mulsant P (1992) Using mark-
ers in gene introgression breeding programs. Genetics
132:1199-1210.
Hwang YS, Thomas BR, Rodriguez RL (1999) Differential
expression of α -amylase genes during seedling devel-
opment under anoxia. Plant Molecular Biology 40:911-
920.