Analysis of Genes for Stigma Coloration in Rice - IRRI books

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Restriction fragment length polymorphism for characterizing monosomic alien addition lines of Oryza sativa having a single chromosome of O. brachyantha O. Panaud, G. Magpantay, E. Galinato, D. Mahapatra, L.A. Sitch, and G.S. Khush Wild species of the genus Oryza are an important source of useful genes for genetic improvement of rice. Among the various wild species, O. brachyantha (2n = 24, genome FF) is resistant to yellow stem borer and whorl maggot. From the BC 3 progeny ( O. sativa/O. brachyantha//O. sativa ), 6 aneuploid plants showing 25 chromosomes were isolated and characterized by restriction fragment length polymorphism (RFLP) analysis. Single-copy DNA probes of the rice genomic library (RG probes) (provided by S.D Tanksley) were labeled with nonradioactive digoxigenin-dUTP (Boehringer- Manheim, Genius kit). The DNAs from the two species were digested with five restriction enzymes ( Eco RI, Eco RV, Bam HI, Hin d lll, and Dra l) and hybridized with a subset of RG probes containing at least one marker per chromosome. RFLP analysls showed that the six addition lines belonged to three groups. Three lines had chromosome 7 of O. brachyantha, showing the bands of both O. brachyantha and O. sativa with the RG probe of chromosome 7, and the O. sativa pattern with the RG probes of the 11 other chromosomes. We designated these three lines MAAL-7. Two lines had chromosome 11 of O. brachyantha (MAAL-11), and one had chromosome 6 (MAAL-6). These findings demonstrate the usefulness of the RFLP technique for characterizing monosomic alien addition lines of rice. In addition, this analysis will be used to monitor introgression of O. brachyantha genetic material in the 24 chromosome derivatives. A similar analysis is being used to identify monosomic alien addition lines of other Oryza species. Notes Authors’ address: O. Panaud, G. Magpantay, E. Galinato, D. Mahapatra, L.A. Stich, and G.S. Khush, International Rice Research Institute, P.O. Box 933, Manila, Philippines. Citation information: International Rice Research Institute (1991) Rice genetics II. P.O. Box 933. Manila, Philippines. Posters 667
Restriction fragment length polymorphism analysis of size of chromosomal segments retained around bacterial blight resistance genes in near-isogenic lines of rice S. Yoshimura, A. Yoshimura, N. Iwata, A. Saito, N. Kishimoto, M. Kawase, M. Nakagahra, and M. Yano Several genes for resistance to bacterial blight were introduced into rice cultivars by repeated backcrossing, and near-isogenic lines were established (Ogawa et al 1988). We measured the sizes of the introgressed DNA segments in some of the near-isogenic lines by using a high-density map of restriction fragment length polymorphism (RFLP) markers (Kishimoto et al 1989, Yano et al 1990). The genotypes at each RFLP marker locus flanking the resistance genes in the nearisogenic lines were determined by hybridization of labeled RFLP clones with restriction enzyme-digested genomic DNA extracted from the recurrent parent IR24, from isogenic lines, and from donor parents. Because of the sequence divergence between IR24 and the donor parents, RFLP could be identified for the markers (Fig. 1). Line IR-BB1 (BC 4 F 6 ; IR24*5/Kogyoku) contains the flanking segment of Xa-1 on chromosome 4 from the resistant parent Kogyoku. RFLP marker Npb235 showed the genotype of Kogyoku in IR-BB1. Physiological marker Ph was also analyzed, and this locus in IR-BBI was of the Kogyoku type. Therefore, the size of the flanking segment of Xa-1 was estimated to be approximately 7.2% based on the maps of Sakaguchi (1967) and Yano et al (1990) (Fig. 2a). The line also possessed the segment introgressed from Kogyoku in another region. To determine the genetic distance between Xa-1 and nearby RFLP markers, an F 2 population and F 3 lines segregating for Xa-1 resistance were analyzed. RFLP loci of XNpb102 and XNpb120 were linked to Xa- 1 with recombination values of 6.7 and 21.5%, respectively (Fig. 2a). RFLP analysis of IR-BB3 (BC 4 F 8 ; IR24*5/Chugoku 45) showed a crossover event between XNpb78 and XNpb186 on chromosome 11 in the process of developing this near-isogenic line (Fig. 2b). Since the segment containing the loci of XNpb78, XNpb181, and XNpb186 was from the resistant donor Chugoku 45 with Xa-3, Xa-3 was inferred to be near the three RFLP markers in the linkage map. 668 Posters
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Rice Genetics II Proceedings of the
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Contents Foreword xiii K. J. Lampe
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Thermosensitive genetic male steril
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Intraspecific variation and genetic
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Restriction fragment length polymor
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Simple, rapid procedure for analyzi
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Foreword The First International Ri
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The First International Rice Geneti
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International cooperation in rice g
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Chromosomes were numbered in decrea
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Establishment of the Rice Genetics
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Abbreviations and acronyms A ABA AC
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S SCA = specific combining ability
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Association between Pox-1 variation
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Near-isogenic lines of Pox-1 Ten F
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Table 3. Association between charac
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2. Comparison of character measurem
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Fu P Y, Pai C (1979) Genetic studie
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protein, since a wx mutant (75-1) p
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2. Heterogeneity of Wx proteins (sp
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Altered gene expression As mentione
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Table 3. Distribution of nonwaxy al
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Notes Authors’ addresses: Y. Sano
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designation to “tropical japonica
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Table 2. Pollen and spikelet fertil
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Table 4. Mean similarity indices an
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Root thickness. The upland and aus
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The aus group is also closely relat
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Notes Authors’ addresses: T.T. Ch
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to identify the wide compatibility
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Hybrids between aus varieties Becau
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Genetic analysis of hybrid sterilit
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Table 5. Detection of wide compatib
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Discussion The system of F 1 hybrid
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How was rice differentiated into in
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1. Relations among phenol reaction,
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3. Association of 9 genes and chara
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The pattern of association among th
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Oka H I (1974) Analysis of genes co
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Table 1. Varieties used in crossing
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1. Hierarchical ascendant classific
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three restriction patterns, while a
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Table 4. Distorted F 2 segregations
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explain the correspondence between
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Traditional highland rices originat
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Morphophysiological variability The
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2. Distribution of varieties from M
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Locus Allele Whole sample Indica gr
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For the japonica group, Madagascar
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Thus, rice introduction in Madagasc
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Rabary E, Noyer J L, Benyayer P, Ar
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The spontaneous hybrids were called
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Table 1. Mean outcrossing rates (m)
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Table 3. Comparison of 1) ratios of
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fertility and to eliminate unfavora
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Discussion Session 1: Varietal diff
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Q— Chang : The earliest remains o
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A— Morishima : Since most of the
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Analysis of genes for stigma colora
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Table 1. Varieties used as parents
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Underlying genes in these different
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(121:9, 2 homogeneous crosses poole
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Table 6. Linkage relations estimate
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Table 9. Recombination values obtai
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In this study, inhibitors for stigm
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Gene mapping of some morphological
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• Liguleless-a. The auricle and l
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Table 3. Linkage between sheathed p
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Table 6. Linkage between short ligu
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3. Linkage relationships between ne
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Linkage relationships between genet
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1. Linkage map of 5 genes including
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Notes Authors’ addresses: H.S. Su
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Table 1. Rice isozyme genes and cor
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10 5 5 8 6 14 18 20 34 15 6.13 (0.5
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1. Linkage maps of 11 isozyme genes
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Table 5. Number of variant subcell
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Ranjhan S, Glaszmann J C, Ramirez D
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environment, have pleiotropic effec
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Table 3. Segregation for Enp-1 in B
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Linkage relationship between isozym
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Table 8. Summary of linkage relatio
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Production of monosomic alien addit
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1. Development of O. sativa MAALs h
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MAAL H, which corresponded to the h
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4. a) PMC of MAAL N showing 12 II +
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Jena K K, Khush G S (1989) Monosomi
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SESSION 3 Genetics of Stress Tolera
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Knowledge of the genetics of drough
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esistant plants unrolled. The resis
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Table 3. Leaf rolling and unrolling
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IRRI—International Rice Research
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Materials and methods Genetic analy
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Table 3. Estimates of genetic param
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1. Grain yield per plant. 1 = IR20,
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Inheritance of panicle exsertion in
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Notes Authors’ address: D.M. Mahi
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parallel to normal soil. Do you thi
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Inheritance of grain size and its i
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size may occur. Takeda (1983) found
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genes allelic to Lk-f. These result
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Grain size in relation to yield To
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Takeda K, Saito K (1980) Major gene
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inhibitors were recovered, plants r
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corresponding amides. Cysteine was
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4. Relationships among seed weight,
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tate was significantly higher in th
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Mutants for rice storage proteins T
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1. SDS-PAGE analysis of salt-insolu
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Table 1. Content of proteins extrac
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Table 3. Segregation of normal and
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Kumamaru T, Satoh H, Iwata N, Omura
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Table 1. Lines carrying late-headin
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Crosses between late-heading lines
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Photoperiod-conditioned male steril
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Table 1. Daily changes in pollen fe
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Plants (%) 1. Distribution of NK58s
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generative nucleus degenerates, wit
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Table 6. Segregation for spikelet f
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Thermosensitive genetic male steril
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Table 3. Seed set percentage and fl
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Table 8. Fertility of H89-1 grown u
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Discussion Session 4: Genetics of m
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Q— Virmani: IRRI is thankful to J
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Transfer of blast and bacterial bli
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inocula in the International Rice B
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1. Blast lesions on a) Oryza sativa
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Table 4. Reaction of WHD IS 78-1 BC
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minuta Acc. 101141 has been shown t
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Inheritance of resistance to rice t
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203 is recessive. The F 2 populatio
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esults of Pankhari 203/TN1 showed a
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RTSV can spread as an independent v
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Genetics of rice resistance to brow
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Table 1. Reaction to BPH of F 1 s a
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esistant:8 segregating:1 susceptibl
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Data on the relative contribution o
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88 (using ADR52 and N’Diang Marie
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Crosses with ADR52 and N’Diang Ma
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Discussion Session 5: Genetics of d
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Application of somaclonal variation
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Unfavorable conditions induced some
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tion. Root and leaf growth was prog
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in vitro selection at the haploid l
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information on the inheritance of c
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espectively). Average frequencies o
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3. (Vr, Wr) graph for plant regener
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Table 6. Analysis of variance of 6
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Genetic analysis for salt tolerance
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Table 1. Regenerants from IR20 and
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Table 5. Fertile R 1 progeny lines
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Somaclonal male sterile mutants and
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sterile plants in the R 1 and R 2 w
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Table 2. Segregation patterns for s
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When Zhen shan 97 B and Er Jiu-ai B
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Oono K (1985) Putative homozygous m
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and exhibiting high regenerative ca
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Table 3. Detection of ß-glucuronid
Page 351 and 352:
Lee L, Schroll R E, Grimes H D, Hod
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advantageous than wing somatic cell
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2. Division frequency of pollen at
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4. Effect of exposure time at diffe
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Table 4. Effect of quality and quan
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Cryopreservation: a method for main
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Table 1. Cryoprotectant and freezin
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treatments (Fig. 1b, c, d) was simi
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3. Post-freeze respiration of pretr
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after freezing. The membrane carrie
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References cited Abdullah R, Cockin
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Discussion Session 6: Tissue and ce
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Q— Zheng Kangle: I wonder if male
Page 378:
SESSION 7 Molecular Genetics of Cyt
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1. Nucleotide sequence of 32-kDa qu
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2. Genetic and physical map of ctDN
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Kanno A, Hirai A (1989) The nucleot
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number of these genes have been obt
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346 André et al
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2. Annotated sequence of IR36 cox 3
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Table 1. Codon usage for 3 rice mit
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ase recognition enzyme and hence is
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Notes Authors’ address: C. Andé,
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pathogen Helminthosporium maydis, r
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cytoplasm of a naturally occurring
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Generally, in vitro cultures genera
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Chowdhury M K U, Schaeffer G W, Smi
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Small I D, Earle E D, Escote-Carlso
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origin. Kadowaki et al (1988) exami
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Table 1. Presence of mitochondrial
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emarkable polymorphisms were observ
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Nakagahra M (1972) Genetic mechanis
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Q— Ranjekar: Are there any variat
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SESSION 8 Molecular Genetics of Nuc
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element has a very high G+C content
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3. Nucleotide sequence alignment of
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4c). However, no messenger RNA can
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6. Genomic blot analysis of IR36 (T
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This gives a ratio of 4.6, which is
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Genetic variation in tissue culture
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1. Genomic DNA was isolated from ri
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3. Genomic DNA from regenerated ric
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Table 2. RFLP analysis of rice plan
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5. Genomic DNA was isolated from ca
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References cited Baker A, Leaver C
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Characterization of repeated DNA se
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1. Hybridization with AA-specific 3
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were observed, suggesting that a te
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References cited Cordesse F, Second
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markers may facilitate selection du
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1. Genomic DNA of rice species dige
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4. Hybridization of pOm6 to Eco RI-
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Notes Authors’ addresses: H. Aswi
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still unclear how many isozymes are
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2. Restriction map of 5 rice chromo
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a Horizontal clones are abbreviated
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(Huttly et al 1988), the Amy2 subfa
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5. Summary of rice a -amylase genes
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intron is not always present. One p
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Discussion Session 8: Molecular gen
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Q— Ranjekar: a -amylase is a mult
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RFLP mapping of the rice genome S.D
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for plant species with comparable g
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on 113 backcross individuals, and t
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ice is the major grain crop. To fac
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Tagging genes for disease and insec
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Table 2. Summary of resistance char
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mapped. 2) We clone unique, or sing
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Kelemu S, Leach J E (1990) Cloning
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Recently developed restriction frag
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The majority of polymorphic clones,
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2. Map of main linkage group of ric
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Valent B, Farrall L, Chumley F G (1
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ecently, a linkage map of RFLP mark
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2. Segregation of some RFLP markers
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to the 12 chromosomes (Fig. 3). For
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Intraspecific variation and genetic
Page 516 and 517:
library from Nipponbare, a Japanese
Page 518 and 519:
Intraspecific differentiation in ri
Page 520:
Oka H I (1953a) Phylogenetic differ
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ice (summarized in Second 1985b). T
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Ava I were studied in all plants, a
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longistaminata occurred (Second 198
Page 529 and 530:
Mitochondrial DNA RFLP in section O
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SATIVA GROUP (Genome A) Ancestral s
Page 533 and 534:
Dally AM, Second G (1989) Chloropla
Page 535 and 536:
genetics of P. oryzae and P. grisea
Page 537 and 538:
Valent et al 1986, Yaegashi and Asa
Page 539 and 540:
[Gabriel 1989] and fungi [Leong and
Page 541 and 542:
Table 2. Similarities between Pyric
Page 543 and 544:
Kato H, Yamaguchi T (1980) Host ran
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Discussion Session 9: RFLP analysis
Page 548:
all sequences are initially duplica
Page 552 and 553:
Rice endosperm proteins and their a
Page 554 and 555:
osmium tetraoxide staining, is obse
Page 556 and 557:
3. Structures of signal sequences o
Page 558 and 559:
endosperm cells. This figure is the
Page 560:
Masumura T, Hibino T, Kidzu K, Mits
Page 563 and 564:
Table 1. Composition of rice (Oryza
Page 565 and 566:
1. Effect of ethanol concentration
Page 567 and 568:
3. ELISA of rice albumin using vari
Page 569 and 570:
against 70% ethanol. Using those im
Page 571 and 572:
Table 1. Rice species used. Species
Page 573 and 574:
Table 2. Rice DNA bands hybridized
Page 575 and 576:
Takaiwa F, Kikuchi S, Oono K (1988)
Page 578:
SESSION 11 Molecular Genetics of Di
Page 581 and 582:
teins and enzymes contributing to r
Page 583 and 584:
Chitinase gene transcripts began to
Page 585 and 586:
phenotype for the chitinase gene. A
Page 587 and 588:
oth a heterologous (tobacco) and in
Page 590 and 591:
Molecular biology of rice tungro vi
Page 592 and 593:
Rice tungro bacilliform virus The p
Page 594 and 595:
Table 1. tRNAs that are (-)-strand
Page 596 and 597:
Ge X, Gordon D T, Gingery R E, McMu
Page 598:
Zhang H M, Yang H, Rech E L, Golds
Page 601 and 602:
the magnitude of the problem, satis
Page 603 and 604:
ecovered. Rice plants infected with
Page 605 and 606:
Genetic map Through the work of sev
Page 607 and 608:
Production of recombinant and trans
Page 609 and 610:
Studies of host plant resistance ha
Page 612:
Discussion Session 11: Molecular ge
Page 616 and 617:
Co-transformation of indica rice vi
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1. Plasmid constructions used in tr
Page 620 and 621:
2. Growth of IR54 protoplasts. a =
Page 622 and 623:
antibiotic-resistant calli per 10 5
Page 624 and 625:
6. Southern blot of DNA isolated fr
Page 626 and 627:
another co-transformation study, To
Page 628 and 629:
Efficient transformation of rice ce
Page 630 and 631:
hygromycin (50 µg/ml). After furth
Page 632 and 633:
2. Southern blot analysis of DNA ex
Page 634 and 635:
Table 4. GUS activity of leaf extra
Page 636:
Nagy F, Boutry M, Hsu M Y, Wong M,
Page 639 and 640:
Gene constructs Regenerating rice p
Page 641 and 642:
callus by histochemical staining us
Page 643 and 644:
3. Southern blot analysis of DNA ex
Page 645 and 646:
4. Tissue-specific and constitutive
Page 647 and 648:
derived from the rice genes could b
Page 650 and 651:
Evaluation of transformation techni
Page 652 and 653:
4000 solution. After 30 min of incu
Page 654 and 655:
Introduction of foreign DNA into dr
Page 656 and 657:
Jefferson R A, Kavanagh T A, Bevan
Page 658 and 659:
Transgenic rice plants produced by
Page 660 and 661:
µg DNA/10 6 protoplasts, and the p
Page 662 and 663:
3. a) Shoot and root differentiated
Page 664:
one showed high GUS activity (Fig.
Page 667 and 668:
Materials and methods Experiments w
Page 669 and 670:
Progeny test for resistance to hygr
Page 671 and 672: 3. Southern blot analysis of transg
Page 673 and 674: Southern blot data are presented fo
Page 675 and 676: Feinberg A P, Vogelstein B (1983) A
Page 678 and 679: Polygenic transformation of rice us
Page 680 and 681: 1. Restriction maps of the plasmids
Page 682 and 683: 2. Transient GUS expression in root
Page 684 and 685: Several somatic embryos germinated
Page 686 and 687: Botti C, Vasil I K (1984) Ontogeny
Page 688: Yang H, Zhang M, Davey M R, Mulliga
Page 691 and 692: integrates into the host genome. Th
Page 693 and 694: I am therefore skeptical that bioli
Page 695 and 696: has still to be shown. This method,
Page 697 and 698: cells and, therefore, all problems
Page 699 and 700: Potrykus I, Paszkowski J, Saul M W,
Page 701 and 702: A— Datta: Sometimes efficiency is
Page 704 and 705: Characterization of a repetitive hy
Page 706 and 707: Comparative studies of the structur
Page 708 and 709: Evolution of the intergenic spacer
Page 710 and 711: Cytoplasmic and nuclear DNA differe
Page 712 and 713: Table 2. Correspondence among 6 enz
Page 714 and 715: correlations between centimorgans (
Page 716 and 717: Table 1. Effect of digestion time o
Page 718 and 719: Introduction of exogenous DNA direc
Page 720 and 721: Isolation of rice phytochrome genes
Page 724 and 725: 1. Southern blot analysis of size o
Page 726 and 727: Accumulation signals of rice endosp
Page 728 and 729: Assessment of protoclonal variation
Page 730 and 731: Tissue culture and somatic hybridiz
Page 732 and 733: References cited Abdullah R, Cockin
Page 734 and 735: The isolation of large numbers of s
Page 736 and 737: Table 1. Survival rate of callus pr
Page 738 and 739: 1. Silver-stained 2-dimensional pol
Page 740 and 741: Cytohistological observations on pl
Page 742 and 743: Production of aneuhaploids (2n=13)
Page 744 and 745: Assessment of gametic selection in
Page 746 and 747: 1. Representation of linkages betwe
Page 748 and 749: Salt tolerance in rice callus cultu
Page 750 and 751: Regeneration of plants from culture
Page 752 and 753: Chromosome studies and multiplicati
Page 754 and 755: Current linkage maps in rice T. Kin
Page 756 and 757: Table continued. Gene Locus Gene Lo
Page 758 and 759: Characterization of rice chromosome
Page 760 and 761: Table 1. Numerical data on somatic
Page 762 and 763: Table 1. Mutant lines that exhibite
Page 764 and 765: 1. Segregation for heading time and
Page 766 and 767: Table 1. Classification of 19 dwarf
Page 768 and 769: Table 1. Top and root characters of
Page 770 and 771: The phenotypic diversity of these 2
Page 772 and 773:
References cited Futsuhara Y, Yamag
Page 774 and 775:
1. Frequency distribution of degree
Page 776 and 777:
1. Changes in plant height, root le
Page 778 and 779:
1. Variation in components among ri
Page 780 and 781:
These analyses reveal the predomina
Page 782 and 783:
Table 1. Genomic and continental re
Page 784 and 785:
Reexamination of genetic control of
Page 786 and 787:
Relatedness of annual and perennial
Page 788 and 789:
among prolamin gene copies could be
Page 790 and 791:
1. Changes in chlorophyll fluoresce
Page 792 and 793:
Genetic control of chilling injury
Page 794 and 795:
Table 4. Relationship between genot
Page 796 and 797:
1. Polypeptide patterns of some M 1
Page 798 and 799:
Table 1. Near-isogenic lines for BB
Page 800 and 801:
Table 1. lntrapopulational variatio
Page 802 and 803:
1. Correlation between reactions to
Page 804 and 805:
Induced mutations for rice improvem
Page 806 and 807:
References cited Arasu, N T, Gaul H
Page 808 and 809:
Table 1. Breeding behavior of selec
Page 810 and 811:
Mutagenic effects of accelerated ar
Page 812 and 813:
References cited Cox R, Thacker J,
Page 814 and 815:
1. Hypothesis for segregatim of sem
Page 816 and 817:
Combining ability and heterosis for
Page 818 and 819:
1. Circle of correlations. WGP = we
Page 820 and 821:
Table 1. Estimates of genetic param
Page 822 and 823:
Table 1. Components of variation an
Page 824 and 825:
Table 1. Pollen and spikelet fertil
Page 826 and 827:
Does hybrid sterility isolate indic
Page 828 and 829:
Effects of genotype x environment i
Page 830 and 831:
Variation in chlorophyll proteins b
Page 832 and 833:
Notes Authors’addresses: N. Watan
Page 834 and 835:
Table 1. Response of young panicle
Page 836 and 837:
Differentiation between populations
Page 838 and 839:
Rice aroma: methods of evaluation a
Page 840 and 841:
Application of computer image analy
Page 842 and 843:
Genetic analysis of embryo length i
Page 844 and 845:
1. Frequency distribution of headin
Page 846 and 847:
Reliable, simple method for produci
Page 848 and 849:
2. Rice pollen plants by 1-step cul
Page 850 and 851:
1. Internode elongation system in w
Page 852 and 853:
Inheritance of high-density rice gr
Page 854 and 855:
Table 2. Estimates of gene effects
Page 856 and 857:
1. Banding patterns of RFLP marker
Page 858 and 859:
1. Ancient rice seed (AD 800) from
Page 860:
Hiratsuka J, Shimada H, Whittier R,
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Overview of the Second Internationa
Page 866 and 867:
Closing remarks F.A. Bernardo I am
Page 868:
• The members of the organizing c
Page 871 and 872:
Report of the meeting on gene symbo
Page 873 and 874:
Report of the meeting to discuss th
Page 875 and 876:
References cited Glaszmann J C, de
Page 877 and 878:
Participants AUSTRALIA P.M. Chay-Pr
Page 879 and 880:
Xiangmin Wang Research Laboratory o
Page 881 and 882:
G. Madhava Reddy Department of Gene
Page 883 and 884:
Mitsugu Horita Hokkaido Green-Bio I
Page 885 and 886:
K. Nonomura Faculty of Agriculture
Page 887 and 888:
KOREA, REPUBLIC OF Moon Soo Cho Tae
Page 889 and 890:
Chairerg Maneephong Faculty of Agri
Page 891 and 892:
R.L. Rodriguez Department of Geneti
Page 893 and 894:
Index of varieties and lines 1 001
Page 895 and 896:
C Calmochi 101 352, 374 Caloro 522
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IR28211-43-1-1-2 797, 798 IR29692-6
Page 899 and 900:
P P1231129 [PI 231 129] 444 Pachcha
Page 901:
X X82 758 Xiang-Dao 80-66 784 Xin-h
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