Table II. Comparative analysis between S. lycopersicum and S. pennellii orthologous genomic regions

Sl, S. lycopersicum; Sp, S. pennellii; At, Arabidopsis; CB, total of compared bases; ND, not determined; UD, undetermined because dn = 0.

BINIDaNamebIdentity (InDels)c CB: XXXExonsdLengthe (Amino Acids)Amino Acid Polymorphismsfds/dng
ExonsIntronsSl-SpSl-AtSp-At
41Sp04gBP4C04.1Diphthine synthase99 (0) CB: 1001h33i0
Sp04gBP4C04.2Putative chaperone protein DNAJ-related99 (0) CB: 48095.3 (2.7) CB: 2,224515925.37.2j7.5j
Sp04gBP4C04.3Expressed gene 198.6 (0) CB: 63394.9 (1.1) CB: 2,07771794
Sp04gBP4C04.4Abscisic acid-responsive HVA22 family protein98.4 (0.0) CB: 96696.0 (1.5) CB: 1,202632191.832.23j2.15j
Sp04gBP4C04.5E2F transcription factor98.8 (0) CB: 99694.3 (3.3) CB: 5,294103318
Sp04gBP4C04.6Putative eukaryotic initiation factor 3 γ-subunit family protein98.7 (0) CB: 1,34195.3 (3.1) CB: 4,3201344673.03.12j3.11j
Sp04gBP4C04.7Putative zinc finger (C2H2 type) family protein97.6 (0.4) CB: 1,35991.4 (5.0) CB: 1,8654451133.8j3.9j3.9j
Sp04gBP4C04.8Plastidic hexokinase99.2 (0) CB: 1,50088.8 (8.1) CB: 2,1119499211j4.6j4.6j
Sp04gBP4C04.9Putative clathrin assembly protein AP17-like protein100 (0) CB: 42973.1(25.2) CB: 3,11361420UD17.8j17.8j
Sp04gBP4C04.10Expressed gene 296.5 (0.6) CB: 9091NDND
Sp04gBP4C04.11Expressed gene 398.3 (0.3) CB: 1,85196.7 (1.6) CB: 1,684106089
Sp04gBP4C04.12Putative transcription coactivator-like protein99.4 (0) CB: 50796.2 (2.2) CB: 1,60451680UD8.7j8.7j
Sp04gBP4C04.13β-Fructofuranosidase99.2 (0) CB: 1,71391.2 (6.1) CB: 2,0084570126j8.0j7.7j
Sp04gBP4C04.14Putative cytomatrix protein99 (0) CB: 1,06294 (3.8) CB: 1,796435381.11.31.3
7HSp07gCP5C04.1Glycerophosphoryl diester phosphodiesterase family protein98.8 (0.0) CB: 16295.9 (1.9) CB: 1,0252h54i2
Sp07gCP5C04.2Protease inhibitor/seed storage/lipid transfer protein family protein97.8 (0.0) CB: 315110451.041.99j1.95j
Sp07gCP5C04.3Polygalacturonase-inhibiting protein 1 (PGIP1)97.7 (0.0) CB: 984132765.8j4.1j3.6j
Sp07gCP5C04.4Similar to fimbrin-like protein98.8 (0.0) CB: 2,57197.0 (1.5)128560UD7.3j7.4j
Sp07gCP5C04.5Expressed gene 196.9 (1.3) CB: 6691NDND
Sp07gCP5C04.6Wax synthase isoform 386.8 (11.1) CB: 1,05313505322.07j2.06j
Sp07gCP5C04.7Wax synthase isoform 398.4 (0.0) CB: 1,0351344101.92.1j2.0j
Sp07gCP5C04.8Cell division protein FtsZ99.0 (0.0) CB: 1,25495.1 (2.2) CB: 3,4386417115.5j6.0j6.3j
Sp07gCP5C04.9TATA-binding protein-associated factor99.3 (0.0) CB: 1,73496.5 (1.8) CB: 2,5801257790.872.9j2.9j
Sp07gCP5C04.10Similar to syntaxin 52 (SYP52)94.8 (4.8) CB: 73594.9(2.8) CB: 2,427524311
Sp07gCP5C04.11Ser/Thr protein phosphatase99.5(0.0) CB: 91896.1 (1.1) CB: 5,494830518.029.8j32.6j
Sp07gCP5C04.12Lipid-binding serum glycoprotein family protein98.8 (0.0) CB: 1,30295.1 (2.3) CB: 2,731543381.92.1j2.2j
Sp07gCP5C04.13PHD finger family protein98.1 (0.1) CB: 2,18498.2 (0.3) CB: 1,150372724
Sp07gCP5C04.14S-Adenosyl-l-Met:carboxyl methyltransferase family protein99.1 (0.0) CB: 1,15580.1 (11.7) CB: 1,222438435.57.0j6.6j
Sp07gCP5C04.15Hyp-rich glycoprotein family protein96.5 (1.2) CB: 96491.8 (3.1) CB: 1,3973h295i23
11CSp11gBP4E08.1Tetratricopeptide repeat-containing protein98.7 (0.0) CB: 47697.0 (1.6) CB: 5073h158i3
Sp11gBP4E08.2Expressed gene 299.4 (0.0) CB: 36093.8 (4.3) CB: 5,444211912.72.9j3.0j
Sp11gBP4E08.3Glc-6-P/phosphate translocator-related98.2 (0.0) CB: 1,01493.8 (1.2) CB: 1,376533792.67.03j7.04j
Sp11gBP4E08.4Peptidoglycan-binding LysM domain-containing protein98.9 (0.0) CB: 1,23794.7 (2.2) CB: 1,6925413111.24.1j4.2j
Sp11gBP4E08.5Coiled-coil protein98.8 (0.0) CB: 2,01396.0 (2.8) CB: 2,1064670113.8j1.5j1.5j
Sp11gBP4E08.6CH1 (chlorophyll b biosynthesis); chlorophyllide a oxygenase98.9 (0.0) CB: 1,61295.4 (1.5) CB: 2,2039536216.5j6.6j6.8j
Sp11gBP4E08.7BTB/POZ domain-containing protein99.8 (0.0) CB: 98795.1 (2.7) CB: 1,812432914.06.5j6.3j
Sp11gBP4E08.8F-box family protein99.3 (0.0) CB: 99096.5 (1.1) CB: 7,2881133033.96.1j6.1j
Sp11gBP4E08.9Putative replication factor C 37-kD subunit98.4 (0.0) CB: 1,02078.6 (16.8) CB: 10,65312340154.0j8.0j7.6j
  • a Gene identification.

  • b Gene functional identity.

  • c Percentage of identity and InDels between the S. lycopersicum and S. pennellii regions analyzed.

  • d Number of exons compared between both genotypes.

  • e Number of amino acids compared between both genotypes.

  • f Polymorphic amino acids on the predicted protein sequence.

  • g Synonymous distance/nonsynonymous distance.

  • h Exons not included in the comparative evolutionary analysis of S. pennellii and S. lycopersicum orthologous regions.

  • i Only partial sequences were compared because genes were located at the end of the clones for any of the genotypes.

  • j Statistically significant purifying selection (P < 0.05).