Table 1.
Phenotypic and genetic analysis of the BM33 and BM38 NIL lines.
Fig 1.
(A) Panicle phenotypes comparing BM33a (right) and BM33b (left); (B) BM38a (right) and BM38b (left). (C) Distinguishable phenotypes in the F2 population of the cross between NILs BM33a and BM38a. These classes were consistent with the presence of LA (left), MA (center) and SA (right). Phenotypic comparison of seed arrays from mature spikelets of NIL lines BM33a (upper) and BM33b (lower) (D) and BM38a (left) and BM38b (right) (E). (F) Distribution of awn ratio. (G) Distribution of awn length. Bars, 10 mm. See Table 2 for abbreviations LA, MA, and SA.
Table 2.
Segregation of awn phenotype, length and rate in an F2 population of the cross between awned NIL lines BM33a and BM38a.
Fig 2.
Fine mapping and prediction of Awn3-1.
(A) Awn3-1 was located between markers RM6283 and RM3180 on rice chromosome 3. Numbers of recombinants are shown below the position of the eight markers. Chromosomal constitution of eleven recombinants (plant numbers 19, 162, 569, 661, 793, 231 and 636) are shown with their panicle type. Grey and white bars represent chromosomal segment of heterozygous and Nipponbare, respectively. (B) Awn3-1 was fine mapped to a 101.13 kb genomic region between markers In316 and S9. (C) The Nipponbare genomic BACs (OSJNBb0056b16 and OSJNBb0028K20) in this region. (D) Gene prediction according to RAP-DB. The gray ellipse in (A) represents the centromere.
Table 3.
Predicted genes in the finely mapped region of Awn3-1 and Awn4-2.
Fig 3.
Semi-quantitative analysis of expression of candidate genes in awned and awnless plants, with Nipponbare as a control.
(A) Expression of Os03g0418600; (B) Expression of actin1 under the same conditions.
Fig 4.
Fine mapping and gene prediction of Awn4-2.
(A) Awn4-2 was located between markers RM5687 and M1304 on rice chromosome 4L. Numbers of recombinants are shown below the position of the 11 markers. Chromosomal constitution of seven recombinants (plant numbers 658, 729, 833, 1105, 1367, 1801, 42, 177, 512, 703 and 1563) are shown with their panicle type. Grey and white bars represent chromosomal segment of heterozygous and Nipponbare, respectively. (B) Awn4-2 was fine mapped between markers M1126 and In73. (C) The Nipponbare genomic BACs (OSJNBb0038P21 and OSJNBb0091C07) in this region. (D) Gene prediction according to RAP-DB. The gray ellipse in (A) represents the centromere.
Fig 5.
Sequence variation in Awn4-2, awn4-2, An-1 and an-1.
Black bars represent 5’ upstream regions and introns. Grey bars represent 5’ and 3’ untranstated regions. Black boxes represent coding regions. The short dashes represent single base deletions. The black triangles represent a 4.4 Kb or 3-bp insertion. Bar = 1Kb.
Fig 6.
Semi-quantitative analysis of expression of Os04g0350700.
(A) Expression of Os04g0350700 in 0–1 cm and 2–5 cm young panicles of awned plants, awnless plants, with Nipponbare as control plants; (B) Expression of actin1 was used as a control.