Table 4 Major QTL clusters associated with grain shape and chalkiness traits detected in this study

qGS1

1

mk289-mk295

425.5–432.5

GW, LWR and CS

3.122–4.948

3.781–7.943

qGS2

2

mk401-mk405

162.5–167.5

GL, LWR and PL

2.765–4.789

3.540–8.689

qGS3.1

3

mk686-mk692

156.5–162.5

AS, PL, CS, GL and LWR

3.161–12.450

7.228–18.648

qGS3.2

3

mk693-mk698

163.5–169

CS, GL, LWR and PL

3.151–14.296

5.068–21.024

GS3 (Fan et al. 2006)

qGS3.3

3

mk794-mk795

286.5–287.5

CS, GL, LWR and PL

2.648–5.080

4.176–6.470

qGS3.4

3

mk819-mk822

311.5–314.5

GL and PL

2.921–5.690

5.600–8.828

qGS5.1

5

mk1174-mk1175

51.5–55.5

CS, GW and LWR

3.047–8.912

3.729–11.617

gw5 (Weng et al. 2008)

qSW5 (Shomura et al. 2008)

qGS5.2, qPGWC5 (qDEC5)

5

mk1189-mk1192

76.5–79.5

CS, GW and AS; PGWC and DEC

2.686–6.347

6.388–12.377

qGS7.1

7

mk1734-mk1739

232.5–239

CS, LWR, GL and PL

4.297–11.568

8.141–17.573

qGS7.2

7

mk1743-mk1745

244–248

CS, GW, LWR and GL

18.346–18.346

12.326–26.139

GL7 (Wang et al. 2015a, b)

GW7 (Wang et al. 2015a)

SLG7 (Zhou et al. 2015b)

qPGWC7 (qDEC7)

7

mk1743-mk1747

244–251.5

PGWC and DEC

2.946–3.662

4.763–7.123

qPGWC-7 (Zhou et al. 2009)

qPGWC8 (qDEC8)

8

mk1786-mk1793

1.5–7.5

PGWC and DEC

4.076–6.002

6.701–10.074