Generation and analysis of 9792 EST sequences from cold acclimated oat, Avena sativa

BMC Plant Biology

Table 6 List of sequences containing the ERF/AP2 DNA-binding domain. The list of ERF/AP2 sequences used in the phylogenetic analysis (figure 4), some of the sequences were also used in the ClustalW alignment (figure 5). The first two letters in the protein name represent the initial letters of the Latin binomial, followed by the gene abbreviation. Each sequence is assigned to one of three different subgroups of the ERF/AP2 superfamily. A. sativa sequences are grouped according to our phylogenetic analysis (Figure 4). All GI accession numbers correspond to protein sequences in gene bank at NCBI [53], and the EMB accession numbers correspond to EST sequences available in the EMBL-nucleotide sequence database [58].

Species	Gene name	Group	Accessions	Reading farme¹
Arabidopsis thaliana	AtABI4	DREB	gi\|15225661
	AtAPETALA2	AP2/RAV	gi\|15234566
	AtANT	AP2/RAV	gi\|15235690
	AtCBF1	DREB	gi\|18416562
	AtCBF2	DREB	gi\|18416557
	AtCBF3	DREB	gi\|18416559
	AtDREB2A	DREB	gi\|15239107
	AtDREB2B	DREB	gi\|15228427
	AtERF1	ERF	gi\|3434967
	AtERF2	ERF	gi\|3434969
	AtERF3	ERF	gi\|3434971
	AtERF5	ERF	gi\|3434975
	AtERF6	ERF	gi\|3298498
	AtLEAFY_PETIOLE	ERF	gi\|15240749
	AtRAP2.1	DREB	gi\|18401592
	AtRAP2.2	ERF	gi\|18400321
	AtRAP2.3	ERF	gi\|15228312
	AtRAP2.4	DREB	gi\|2281633
	AtRAP2.5	ERF	gi\|2281635
	AtRAP2.6	ERF	gi\|15218275
	AtRAP2.7	AP2/RAV	gi\|18401775
	AtRAP2.10	DREB	gi\|15234561
	AtRAP2.11	AP2/RAV	gi\|15241182
	AtRAP2.12	ERF	gi\|15220971
	AtRAV1	AP2/RAV	gi\|25091118
	AtRAV2	AP2/RAV	gi\|11357264
	AtTINY	DREB	gi\|15239501
Avena sativa	AsAP2.1	ERF	emb\|AM071401	+ 1
	AsAP2.2	ERF	emb\|AM071402	+ 2
	AsAP2.3	ERF	emb\|AM071403	- 3
	AsAP2.4	AP2/RAV	emb\|AM071404	+ 1
	AsAP2.5	AP2/RAV	emb\|AM071405	+ 2
	AsCBF1	DREB	gi\|72059436
	AsCBF2	DREB	gi\|72059440
	AsCBF3	DREB	emb\|AM071408	+ 2
	AsCBF4	DREB	gi\|72059443
	AsERF1	AP2/RAV	emb\|AM071410	+ 2
	AsERF2	AP2/RAV	emb\|AM071411	+ 2
Brassica napus	BnCBF1	DREB	gi\|17352283
	BnCBF2	DREB	gi\|17352285
Catharanthus roseus	CrORAC1	DREB	gi\|8346773
	CrORAC2	ERF	gi\|8346775
	CrORAC3	ERF	gi\|8980315
Hordeum vulgare	HvCBF1	DREB	gi\|12658319
	HvCBF2	DREB	gi\|20152903
	HvCBF3	DREB	gi\|12658321
Nicotiana tabacum	NtACRE111A	DREB	gi\|12003382
	NtACRE111B	DREB	gi\|12003384
	NtTSI1	ERF	gi\|3065895
Lycopersicon esculentum	LeCBF1	DREB	gi\|18535580
Oryza sativa	OsDREB1A	DREB	gi\|22594969
	OsDREB1B	DREB	gi\|22594973
	OsDREB2	DREB	gi\|22594971
Secale cereale	ScCBF	DREB	gi\|17148651
Triticum aestivum	TaDREB	DREB	gi\|17226801

1) Nucleotide sequences that have been used in the phylogenetic analysis or in the ClustalW alignment have been translated in to amino acid sequences using the indicated reading frames.

ISSN: 1471-2229