Table 4

The distribution of the trinucleotide sequences immediately after the discriminator nucleotide in chloroplast tRNA genes

Species

74CCA76

74CCN76

74CNN76

Total genes examined

%+


Arabidopsis thaliana

0

1

11

37

32

Brachypodium distachyon

1

1

8

38

26

Carica papaya

0

1

8

37

24

Citrus sinensis

2

1

7

37

27

Cucumis sativus

0

1

7

37

22

Eucalyptus grandis

0

1

8

36

25

Glycine max

0

1

9

37

27

Manihot esculenta

0

1

7

37

22

Medicago truncatula

0

0

5

29

17

Oryza sativa japonica

1

2

7

38

26

Populus trichocarpa

0

0

10

37

27

Prunus persica

0

1

8

37

24

Sorghum bicolor

0

2

7

38

24

Vitis vinifera

0

1

8

37

24

Zea mays

1

2

7

37

27


Nucleotide sequences of chloroplast tRNA genes and their 3' flanking regions were obtained from the GenBank genome database http://www.ncbi.nlm.nih.gov/genomes/genlist.cgi?taxid=2759&type=4&name=Eukaryotae%20Organelles webcite, the Chloroplast Genome Database (ChloroplastDB; http://chloroplast.cbio.psu.edu/organism.cgi webcite), and the Organelle Genome Database (GOBASE; http://gobase.bcm.umontreal.ca/searches/gene.php webcite). The discriminator nucleotide was predicted using tRNAscan-SE 1.21 http://lowelab.ucsc.edu/tRNAscan-SE/ webcite. +Percentage of chloroplast tRNA genes encoding 74CNN76, 74CCN76 and 74CCA76.

Fan et al. BMC Evolutionary Biology 2011 11:219   doi:10.1186/1471-2148-11-219

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