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. 2009 Aug;21(8):2203–2219. doi: 10.1105/tpc.109.068411

Table 1.

The 80 Ribosomal Proteins in Arabidopsis and Numbers of B. napus Translated Unigenes (Contigs and Singletons, n = 1665) Matching Each Arabidopsis r-Protein

Arabidopsis Ribosomal Proteins
 B. napus Genes Matching Arabidopsis Ribosomal Proteins
Ribosomal Protein Gene Paralogs Encoding the r-Proteina AGI Identificationb Number of B. napus Genes Matching the Arabidopsis r-Protein Ratio of Gene Number for B. napus versus Arabidopsisc
C S Genesd
Sa RPSaA RPSaB At1g72370 At3g04770 16 11 27 13.5
S2 RPS2A RPS2B RPS2C RPS2D At1g58380 At1g59359 At2g41840 At3g57490 15 14 29 7.3
S3 RPS3A RPS3B RPS3C At2g31610 At3g53870 At5g35530 8 5 13 4.3
S3a RPS3aA RPS3aB At3g04840 At4g34670 18 9 27 13.5
S4 RPS4A RPS4B RPS4C(Psg) RPS4D At2g17360 At5g07090 N.A. At5g58420 13 10 23 7.6
S5 RPS5A RPS5B At2g37270 At3g11940 13 13 26 13.0
S6 RPS6A RPS6B At4g31700 At5g10360 11 4 15 7.5
S7 RPS7A RPS7B RPS7C At1g48830 At3g02560 At5g16130 12 8 20 6.7
S8 RPS8A RPS8B At5g20290 At5g59240 8 3 11 5.5
S9 RPS9A(Psg) RPS9B RPS9C At4g12160 At5g15200 At5g39850 10 8 18 9.0
S10 RPS10A RPS10B RPS10C At4g25740 At5g41520 At5g52650 11 4 15 5.0
S11 RPS11A RPS11B RPS11C At3g48930 At4g30800 At5g23740 18 4 22 7.3
S12 RPS12A RPS12B(Psg) RPS12C At1g15930 At1g80800 At2g32060 14 4 18 9.0
S13 RPS13A RPS13B At3g60770 At4g00100 19 10 29 14.5
S14 RPS14A RPS14B RPS14C At2g36160 At3g11510 At3g52580 9 2 11 3.7
S15 RPS15A RPS15B RPS15C RPS15D RPS15E RPS15F At1g04270 At5g09490 At5g09500 At5g09510 At5g43640 At5g63070 10 9 19 3.2
S15a RPS15aA RPS15aB RPS15aC RPS15aD RPS15aE RPS15aF At1g07770 At2g19720 At2g39590 At3g46040 At4g29430 At5g59850 19 7 26 4.3
S16 RPS16A RPS16B RPS16C At2g09990 At3g04230 At5g18380 11 9 20 6.7
S17 RPS17A RPS17B RPS17C RPS17D At2g04390 At2g05220 At3g10610 At5g04800 16 5 21 5.3
S18 RPS18A (A) RPS18B (B) RPS18C (C) At1g22780 At1g34030 At4g09800 10 4 14 4.7
S19 RPS19A RPS19B RPS19C At3g02080 At5g15520 At5g61170 17 11 28 9.3
S20 RPS20A RPS20B RPS20C At3g45030 At3g47370 At5g62300 12 1 13 4.3
S21 RPS21A(Psg) RPS21B RPS21C At3g27450 At3g53890 At5g27700 18 9 27 13.5
S23 RPS23A RPS23B At3g09680 At5g02960 12 2 14 7.0
S24 RPS24A RPS24B At3g04920 At5g28060 23 9 32 16.0
S25 RPS25A RPS25B RPS25C(Psg) RPS25D RPS25E At2g16360 At2g21580 At3g30740 At4g34555 At4g39200 19 12 31 7.8
S26 RPS26B RPS26A RPS26C At2g40510 At2g40590 At3g56340 9 2 11 3.7
S27 RPS27A RPS27B RPS27C(Psg) RPS27D At2g45710 At3g61110 N.A. At5g47930 23 15 38 12.7
S27a RPS27aA RPS27aB RPS27aC At1g23410 At2g47110 At3g62250 13 1 14 4.7
S28 RPS28A RPS28B RPS28C At3g10090 At5g03850 At5g64140 14 5 19 6.3
S29 RPS29A RPS29B RPS29C RPS29D(Psg) At3g43980 At3g44010 At4g33865 N.A. 18 6 24 8.0
S30 RPS30A RPS30B RPS30C At2g19750 At4g29390 At5g56670 19 11 30 10.0
P0 RPP0A RPP0B RPP0C At2g40010 At3g09200 At3g11250 12 13 25 8.3
P1 RPP1A RPP1B RPP1C At1g01100 At4g00810 At5g47700 20 12 32 10.7
P2 RPP2A RPP2B RPP2C RPP2D RPP2E At2g27720 At2g27710 At3g28500 At3g44590 At5g40040 20 5 25 5.0
P3 RPP3A RPP3B At4g25890 At5g57290 7 7 14 7.0
L3 RPL3A(1) RPL3B(2) RPL3C(Psg) At1g43170 At1g61580 At5g42445 11 11 22 11.0
L4 RPL4A RPL4B(Psg) RPL4C(Psg) RPL4D At3g09630 At1g35200 At2g24730 At5g02870 15 21 36 18.0
L5 RPL5A RPL5B RPL5C(Psg) At3g25520 At5g39740 At5g40130 10 17 27 13.5
L6 RPL6A RPL6B RPL6C At1g18540 At1g74060 At1g74050 12 10 22 7.3
L7 RPL7A RPL7B RPL7C RPL7D At1g80750 At2g01250 At2g44120 At3g13580 19 6 25 6.3
L7a RPL7aA RPL7aB At2g47610 At3g62870 17 12 29 14.5
L8 RPL8A RPL8B RPL8C At2g18020 At3g51190 At4g36130 15 12 27 9.0
L9 RPL9A RPL9B RPL9C RPL9D N.A. At1g33120 At1g33140 At4g10450 10 2 12 3.0
L10 RPL10A RPL10B RPL10C At1g14320 At1g26910 At1g66580 8 5 13 4.3
L10a RPL10aA RPL10aB RPL10aC At1g08360 At2g27530 At5g22440 12 12 24 8.0
L11 RPL11A(A) RPL11B RPL11C(B) RPL11D At2g42740 At3g58700 At4g18730 At5g45775 18 14 32 8.0
L12 RPL12A RPL12B RPL12C At2g37190 At3g53430 At5g60670 17 14 31 10.3
L13 RPL13A(Psg) RPL13B RPL13C RPL13D At3g48130 At3g49010 At3g48960 At5g23900 15 20 35 11.7
L13a RPL13aA RPL13aB RPL13aC RPL13aD At3g07110 At3g24830 At4g13170 At5g48760 11 4 15 3.8
L14 RPL14A RPL14B At2g20450 At4g27090 10 7 17 8.5
L15 RPL15A RPL15B At4g16720 At4g17390 5 0 5 2.5
L17 RPL17A RPL17B At1g27400 At1g67430 11 9 20 10.0
L18 RPL18A RPL18B RPL18C At2g47570 At3g05590 At5g27850 10 5 15 5.0
L18a RPL18aA RPL18aB RPL18aC At1g29970 At2g34480 At3g14600 22 10 32 10.7
L19 RPL19A RPL19B RPL19C At1g02780 At3g16780 At4g02230 20 14 34 11.3
L21 RPL21A RPL21B(Psg) RPL21C RPL21D(Psg) RPL21E RPL21F At1g09590 At1g09486 At1g09690 At1g31355 At1g57660 At1g57860 12 2 14 3.5
L22 RPL22A RPL22B RPL22C At1g02830 At3g05560 At5g27770 14 9 23 7.7
L23 RPL23A RPL23B RPL23C At1g04480 At2g33370 At3g04400 15 9 24 8.0
L23a RPL23aA(2) RPL23aB(3) At2g39460 At3g55280 14 20 34 17.0
L24 RPL24A RPL24B At2g36620 At3g53020 6 2 8 4.0
L26 RPL26A RPL26B At3g49910 At5g67510 7 6 13 6.5
L27 RPL27A RPL27B RPL27C At2g32220 At3g22230 At4g15000 12 1 13 4.3
L27a RPL27aA RPL27aB RPL27aC At1g12960 At1g23290 At1g70600 18 4 22 7.3
L28 RPL28A RPL28B(Psg) RPL28C At2g19730 N.A. At4g29410 11 4 15 7.5
L29 RPL29A RPL29B At3g06700 At3g06680 9 3 12 6
L30 RPL30A RPL30B RPL30C At1g36240 At1g77940 At3g18740 11 4 15 5
L31 RPL31A RPL31B RPL31C At2g19740 At4g26230 At5g56710 17 2 19 6.3
L32 RPL32A RPL32B At4g18100 At5g46430 14 1 15 7.5
L34 RPL34A RPL34B RPL34C At1g26880 At1g69620 At3g28900 11 6 17 5.7
L35 RPL35A RPL35B RPL35C RPL35D At3g09500 At2g39390 At3g55170 At5g02610 12 1 13 3.3
L35a RPL35aA RPL35aB RPL35aC RPL35aD At1g07070 At1g41880 At1g74270 At3g55750 15 8 23 5.8
L36 RPL36A RPL36B RPL36C At2g37600 At3g53740 At5g02450 13 5 18 5
L36a RPL36aA RPL36aB At3g23390 At4g14320 10 1 11 5.5
L37 RPL37A RPL37B RPL37C At1g15250 At1g52300 At3g16080 12 1 13 4.3
L37a RPL37aA(Psg) RPL37aB RPL37aC N.A. At3g10950 At3g60245 14 9 23 11.5
L38 RPL38A RPL38B At2g43460 At3g59540 24 12 36 18
L39 RPL39A RPL39B RPL39C At2g25210 At3g02190 At4g31985 12 5 17 5.6
L40 RPL40A RPL40B At2g36170 At3g52590 11 2 13 6.5
L41 RPL41A RPL41B(Psg) RPL41C RPL41D RPL41E RPL41F RPL41G N.A. N.A. At2g40205 At3g08520 At3g11120 N.A. At3g56020 0 0 0 –
Total number matching r-proteins in B. napus 1079 586 1665 Mean fold increase in gene number 7.9

The Arabidopsis r-protein gene list is based on Barakat et al. (2001). The table includes all B. napus genes matching any one of the Arabidopsis paralogs for a particular r-protein. Arabidopsis gene names and AGI identifiers are given in the same order across the two columns above. C, contigs; S, singletons, Psg, pseudogene, N.A., no AGI number available.

a

The paralog identifications are those provided by Barakat et al. (2001).

b

Some of the AGI numbers have been updated/adjusted based on data from The Arabidopsis Information Resource (TAIR). Of particular note, the AGI number for RPL35aA used here is At1g07070 (differing from the identification At1g06980 listed in Barakat et al., 2001) and for RPS25D is At4g34555 (differing from At4g34670 listed in Barakat et al., 2001). The AGI number for L18Aa listed by Barakat et al. (2001) is At1g29970 and thus is the locus ID used here (an additional ID is also available in TAIR). The AGI numbers provided by Barakat et al. (2001) were used as the template for identification of Arabidopsis r-proteins used in our analysis and were only changed when necessary (e.g., when the AGI number listed by Barakat et al. [2001] is no longer available in TAIR or when a different protein is listed for a particular AGI number; r-proteins previously lacking an AGI ID that are currently identified at TAIR were updated).

c

The number of paralogs in Arabidopsis used in this calculation does not include those genes identified as pseudogenes. A total of 79 of 80 Arabidopsis r-proteins have a match in the B. napus gene data set. Arabidopsis r-protein pseudogenes and genes lacking an AGI number are provided in the table but were not included in our Arabidopsis r-protein data set.

d

The mean number of genes per r-protein in B. napus is 20.8.