Combined de novo and genome guided assembly and annotation of the Pinus patula juvenile shoot transcriptome

BMC Genomics

Table 1 Protein sets used for analysis of orthologous genes

Source	Species	Total sequences	Clustered sequences^a
Protein sets from PLAZA v2.5	Arabidopsis thaliana	27 403	26 465
	Glycine max	46 324	36 364
	Oryza sativa	41 363	39 541
	Physcomitrella patens	28 090	26 072
	Populus trichocarpa	40 141	35 668
	Ricins communis	31 009	30 330
	Selaginella moellendorffii	18 384	16 876
	Theobroma cacao	28 858	28 294
	Vitis vinifera	26 238	24 635
	Zea mays	39 172	34 664
External protein sets	Amborella trichopoda	25 347	24 643
	Picea abies	22 070	20 869
	Picea sitchensis	10 521	8 770
	Pinus patula	52 112	41 956
	Pinus taeda	50 172	47 225

^aProteins were clustered to 90 % identity and only the longest sequence was retained for each cluster

ISSN: 1471-2164