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. 2011 Mar 9;11:44. doi: 10.1186/1471-2229-11-44

Figure 3.

Figure 3

Phlyogenetic analysis of protein sequences from all Arabidopsis RLK-LRR subclass LRRII genes, Medicago SERK and SERKL genes, known and predicted NIK and SERK-like protein sequences from soybean and SERK or SERK-like genes from a number of different species. The soybean sequences that were predicted from genomic sequence are indicated by their gene locus number preceded by "Gm." The loci numbers of soybean protein sequences from the protein database are Gm10g36280 (GmSERK1), Gm08g19270 (Gm2) and Gm13g07060 (GmNIK). Sequences falling into the SERK1/2 subfamily are indicated with blue lines-sequences from dicotyledonous plants in light blue and from monocotyledonous plants in dark blue. The SERK3/4/5 subfamily is indicated with purple lines. Other non-SERK, non-NIK genes are a sister clade to these (shown in green). Sequences belonging to the NIK family clade are indicated with red lines. Sequences from the primitive Bryophyte, Marchantia polymorpha, Mp1 and Mp2, sit separately from the other family genes, but could be classed as a SERK and a NIK gene respectively. Estimated times of duplication events (indicated by numbers 1-4) in M. truncatula SERK 3/4/5 subfamily genes are: 1 - 3.25, 2 - 3.05, 3 - 2.65 and 4 - 2.2 million years ago. Plant species abbreviations used in tree. At - Arabidopsis thaliana, Cp - Carica papaya (papaya), Cs - Citris sinensis (sweet orange), Cu - Citrus unshiu (Satsuma orange), Cn - Cocus nucifera (coconut), Cpe - Cyclamen persicum, Dc - Daucus carota (carrot), Dl - Dimocarpus longan (logan), Gm - Glycine max (soybean), Hv - Hordeum vulgare (barley), Mp - Marchantia polymorpha (liverwort), Mt - Medicago truncatula (barrel medic), Os - Oryza sativa (rice), Pp - Poa pratensis (Kentucky bluegrass), Pt - Populus tomentose (Chinese white poplar), Rc - Ricinus communis (castor oil plant), Sh - Saccharum hybrid cultivar (sugarcane), Solanum peruvianum (Peruvian nightshade), St - Solanum tuberosum (potato), Tc - Theobroma cacao (cocoa), Ta - Triticum aestivum (bread wheat), Vv - Vitis Vinifera (grape), Zm - Zea mays (maize). Locus number or sequence identifier for the sequences shown are: AtSERK1 - At1G71830, AtSERK2 - At1G34210, AtSERK3 - At4G33430, AtSERK4 - At2g13790, AtSERK5 - At2G13800, AtNIK1 - At5g16000, AtNIK2 - At3g25560, AtNIK3 - At1G60800, Cp1 - ABS32233.1, Cs1 - ACP20180.1, Cu1 - BAD32780.1, Cn1 - AAV58833.2, Cpe1 - ABS11235, DcSERK - AAB61708.1, Dl1 - ACH87659.2, GmSERK1 - ACJ64717.1, Gm2 - ACJ37402.1, GmNIK - ACM89473.1, Hv1 - ABN05373.1, Mp1 - BAF79935.1, Mp2 - BAF79962.1, MtSERK1 - AAN64293.1, other M. truncatula genes - see Table 1, Os1 - Os01g0171000, Os2 - Os08g0174700, Os3 - Os08g07760, Os4 - Os06g0225300, Os5 - Os04g0457800, PpSERK1 - CAH56437.1, PpSERK2 - CAH56436.1, Pt1 - ABG73621.1, Rc1 - XP_002520361.1, Rc2 - XP_002534492.1, Sh1 - ACT22809.1, Sp1 - ABR18800.1, StSERK1 - ABO14173.1, St2 - ABO14172.1, Tc1 - AAU03482.1, Ta1 - ACD49737.1, VvSERK1 - CAO64642.1, VvSERK2 - CAN65708.1, Vv3 - XP_002270847.1, ZmSERK1 - NP_001105132.1, ZmSERK2 - NP_001105133.1, Zm3 - ACL53442.1, Zm4 - ACF87700.1 Other Arabidopsis RLK-LRRII sequences are labelled with their gene locus number. Associated publications: Cu1 (CitSERK1 [12], Cn1 [17], DcSERK [7], Mp1 (MpRLK2) and Mp2 (MpRLK29 [40], MtSERK1 [9], Os2 (OsSERK1 [69,70], Os3 (OsBISERK1 [43], Os4 (OsSERK3 [70], Os5 (OsSERK1 [30] and OsSERK2 [70], PpSERK1, PpSERK2 [44], StSERK1 [15], Tc1 [71], VvSERK1 and VvSERK2 [14], ZmSERK1 and ZmSERK2 [4]