Phylogenetic Origin of BBCC Genome Allotetraploids in Oryza Revealed by Chloroplast Gene Sequences

doi:10.11983/CBB15054

Abstract

Abstract: With 9 maternal heritable chloroplast gene fragments (atpA, atpB, matK, petA, psaA, psbA, psbB, psbC, and rbcL), we explored the lineage relationships of 3 BBCC genome allotetraploids and 5 related BB or CC genome diploids in the Oryza genus. Further phylogenetic analyses indicated that the 3 allotetraploid species did not originate from a common speciation event but occurred at least 3 times in different distribution areas. The maternal parent of the tetraploid O. punctata was possibly the Africa CC genome diploid O. eichingeri, whereas the maternal parent of O. minuta and O. malampuzhaensis was possibly 2 extinct Asian BB genome diploids. Our results provided important molecular evidence to track complicated reticular evolutionary processes for the polyploids and also broaden our understanding of the puzzling speciation histories of flowering plants.

Key words: diploid, allotetraploid, lineage relationship, genome

Jiaxiao Du, Zongyan Qin, Si Xu, Xiang Jing, Ying Bao. Phylogenetic Origin of BBCC Genome Allotetraploids in Oryza Revealed by Chloroplast Gene Sequences[J]. Chinese Bulletin of Botany, 2016, 51(2): 175-183.

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URL: https://www.chinbullbotany.com/EN/10.11983/CBB15054

https://www.chinbullbotany.com/EN/Y2016/V51/I2/175

Figures/Tables 6

References 24

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Species	Genome	IRRI Acc. No.	Origin
Oryza punctata Kotechy ex Steud.	BB	103888	Tanzania
Oryza punctata Kotechy ex Steud.		101434	Tanzania
O. eichingeri A. Peter	CC	105159	Uganda
O. officinalis Wall. ex G. Watt.	CC	104973	China
O. rhizomatis D. A. Vaughan	CC	103410	Sri Lanka
O. malampuzhaensis Krish. et Chand.	BBCC	80764	India
O. malampuzhaensis Krish. et Chand.		105223	India
		105328	India
O. minuta J. S. Presl. ex C. B. Presl.	BBCC	104677	Philippines
O. minuta J. S. Presl. ex C. B. Presl.		105307	Philippines
		103880	Philippines
O. punctata	BBCC	105181	Uganda
		104059	Nigeria
		104975	Kenya
O. australiensis Domin	EE	103303	Australia
		105165	Australia

Species	Genome	IRRI Acc. No.	Origin
Oryza punctata Kotechy ex Steud.	BB	103888	Tanzania
Oryza punctata Kotechy ex Steud.		101434	Tanzania
O. eichingeri A. Peter	CC	105159	Uganda
O. officinalis Wall. ex G. Watt.	CC	104973	China
O. rhizomatis D. A. Vaughan	CC	103410	Sri Lanka
O. malampuzhaensis Krish. et Chand.	BBCC	80764	India
O. malampuzhaensis Krish. et Chand.		105223	India
		105328	India
O. minuta J. S. Presl. ex C. B. Presl.	BBCC	104677	Philippines
O. minuta J. S. Presl. ex C. B. Presl.		105307	Philippines
		103880	Philippines
O. punctata	BBCC	105181	Uganda
		104059	Nigeria
		104975	Kenya
O. australiensis Domin	EE	103303	Australia
		105165	Australia

Species (genome)	Variable nucleotide sites
Species (genome)	atpA	atpB	matK	psaA	psbA	psbB	psbC	rbcL
O. punctata (BB)	GGA	GGC	CTATATAATTCTTTCT	C	ACC	G	GAAA	CTTGTC
O. punctata (BB)	...	...	................	.	...	.	....	......
O. minuta (BBCC)	A..	...	................	.	...	.	....	......
O. malampuzhaensis (BBCC)	A..	A..	.......C........	.	...	.	....	......
O. eichingeri (CC)	AAC	AAT	TAGCGCCATCAACTTA	T	GTT	A	GGCG	ACGACG
O. officinalis (CC)	...	...	........A....C..	.	...	.	C.A.	......
O. rhizomatis (CC)	...	...	................	.	...	.	..A.	......
O. punctata (BBCC)	...	...	................	.	...	.	....	......

Species (genome)	Variable nucleotide sites
Species (genome)	atpA	atpB	matK	psaA	psbA	psbB	psbC	rbcL
O. punctata (BB)	GGA	GGC	CTATATAATTCTTTCT	C	ACC	G	GAAA	CTTGTC
O. punctata (BB)	...	...	................	.	...	.	....	......
O. minuta (BBCC)	A..	...	................	.	...	.	....	......
O. malampuzhaensis (BBCC)	A..	A..	.......C........	.	...	.	....	......
O. eichingeri (CC)	AAC	AAT	TAGCGCCATCAACTTA	T	GTT	A	GGCG	ACGACG
O. officinalis (CC)	...	...	........A....C..	.	...	.	C.A.	......
O. rhizomatis (CC)	...	...	................	.	...	.	..A.	......
O. punctata (BBCC)	...	...	................	.	...	.	....	......