Additional file 1 –Primer symbol, primer sequences, and annealing temperatures of the sod genes
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Спампаваць 253.74 Kb.
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Additional filesAdditional file 1 –Primer symbol, primer sequences, and annealing temperatures of the SOD genes
Additional file 2 Primer sequences, product sizes, PCR efficiencies and Tm of the SOD genes
Additional file 3 Characteristics of proteins encoded by longan DlSODs
Additional file 4 –Multiple alignment of DlCSD genes. 
Additional file 5 cDNA and putative amino acid sequences of (A) DlCSD1b-variant1 (JF316735) and (B) DlFSD1b-variant1 (JF316731). Start and stop codons are boxed, and variant sequences are underlined. A. DlCSD1b-variant1 (JF316735) 1 ATGGAGAGTGGAAAGAGCACAGTGAAAGCTGTTGCAGTCATCTCCTCTGCAGACAACAACGTTAGAGGCTCTCTTCACTTCCTTCAACACCCCAACGGAGTGACACATGTGAAAGGGACC 1 M E S G K S T V K A V A V I S S A D N N V R G S L H F L Q H P N G V T H V K G T 121 ATTTTTGGATTGAAACCAGGTCTTCATGGCTTCCATATTCACGCCCTTGGTGACACCACCAATGGCTGCAACTCTACTGGACCTCATTTCAATCCACTGAAGAAGGATCATGGGGCTCCC 41 I F G L K P G L H G F H I H A L G D T T N G C N S T G P H F N P L K K D H G A P 241 AGCGATACAGAGCGGCATGCTGGCGATTTGGGTAACATCGTTGCAGGCTCTGATGGAGTTGCTGCGGTTTCAATTTCTGACAGGCAGATTCCTTTGAGTGGGCAACATTCCATATTGGGG 81 S D T E R H A G D L G N I V A G S D G V A A V S I S D R Q I P L S G Q H S I L G 361 AGGGCTGTTGTTGTGCATGCTGATCCTGATGATCTTGGAAAAGATGAAGCACAAACGAAGAAGCTCTTTTGCAGTCTTAAAGCCCTTACATGCCTCTAAATCTAATCTGAATACCTCATG 121 R A V V V H A D P D D L G K D E A Q T K K L F C S L K A L T C L * 481 CGTTTCACTTGAGTTTCCACTTCCGTGATCTGGTTGTAAC B. DlFSD1b-variant1 (JF316731) 1 ATGGTGTCTTTGAGTCCCAGTCTTACTCATCTTCCGGTGACTGAGTGGAAGAGTCCCAAGCTTCCTGATTGGAAGCGACAAACACCACCTCGGAAAGTTGTTGCTTACTATGGCTTAAAG 1 M V S L S P S L T H L P V T E W K S P K L P D W K R Q T P P R K V V A Y Y G L K 121 ACGCCTCCTTATAAACTTGATGCTTTAGAACCATATATGAGTAAGAGGACATTGGAAATGCATTGGGGAGAGCATCATCGTGGGTATGTAGATGGGTTGAATAAACAGCTTGAGAAGAGT 41 T P P Y K L D A L E P Y M S K R T L E M H W G E H H R G Y V D G L N K Q L E K S 241 GACCTTCTGTATGGCTATACTATGGATGAACTTGTTAAAGTAACTTACAATAATGGCAATCCGTTACCCGAGTTCAACAATGCTGCCCAGGTATGGAATCATGACTTCTTTTGGGAGTCC 81 D L L Y G Y T M D E L V K V T Y N N G N P L P E F N N A A Q V W N H D F F W E S 361 ATGCAGCCTGGAGGAGGTGACATGCCTAGATTTGGACTTCTTGACCAAATTGAAAAGGATTTTGGTTCCTTTTCAAATTTCAGAGAGAATTTCATAGAAGCTGCCCTCACACTATTTGGT 121 M Q P G G G D M P R F G L L D Q I E K D F G S F S N F R E N F I E A A L T L F G 481 TCTGGCTGGGTTTGGCTTGCTTTAAAGAGAGAAGAGAGACGTCTTGAAGTAATGAAAACATCAAATGCCATCAATCCTCTAGTTTGGGATGATATTCCTATCATCAGTTTGGATATGTGG 161 S G W V W L A L K R E E R R L E V M K T S N A I N P L V W D D I P I I S L D M W 601 GAGGTAAGTTTGGTATATCTCTTTCTTTTTGTGGCTAATTGGCTATGAATAATGGA 201 E V S L V Y L F L F V A N W L *
Additional file 7–Multiple alignment of DlSOD proteins and SOD proteins from other plant species. Signal peptides are boxed and conserved sequences are highlighted. (A) Multiple alignment of deduced protein sequences from longan DlCSD1a, DlCSD1a, and DlCSD2a. CuZn-SOD signature 1 is underlined; CuZn-SOD signature 2 is indicated by a wavy line. (B) Multiple alignment of deduced protein sequences from longan DlFSD1a, DlFSD1b, and DlFSD1b (JF316733). Mn and Fe-SOD signature 1 is underlined. (C) Multiple alignment of deduced amino acid sequences of longan DlMSD proteins with those of Gossypium hirsutum (Gh), Arabidopsis thaliana (At), Populus trichocarpa (Pt), and Oryza sativa (Os). The “WEHAYY” signature is in bold. A. DlCSDs
DlCSD1b ----------------------------------------------------------------MESGKSTVKAVAVISPADNNVRGSLHFLQHPNGVTH 36 DlCSD2a MQAAIAAMAAHTILTASPPFSHHPLLSTFPSPNTLTRTSSFRGVSLNPTTHHLHSHCCGLQALHCRRCYKKAVAVAVLKGNSN-VEGVVSLTQENDGPTT 99 DlCSD1a VTGSLCGLKPGLHGFHVHALGDTTNGCMSTGPHFNPAAKEHGSPEDENRHAGDLGNVNVGDDGTVSFTIVDKQIPLTGPNSVVGRAVVVHSDPDDLGKGG 129 DlCSD1b VKGTIFGLKPGLHGFHIHALGDTTNGCNSTGPHFNPLKKDHGAPSDTERHAGDLGNIVAGSDGVAEVSISDRQIPLSGQHSILGRAVVVHADPDDLGKGG 136 DlCSD2a VNVRITGLTPGPHGFHLHEYGDTTNGCMSTGAHFNPNSMTHGAPEDEVRHAGDLGNVVANANGVAEAIIVDNQIPLSGPNTVIGRALVVHELEDDLGKGG 199 DlCSD1a HELSKSTGNAGGRLACGVIGLQA-- 152 DlCSD1b HELSKTTGNAGGRIGCGIIGLQSSV 161 DlCSD2a HELSLSTGNAGGRLACGVVGLTPV- 222 B. DlFSDs
DlFSD1b -------------------MVSLSPSLTHLPVTEWKSPKLPDWKRQTPPRKVVAYYGLKTPPYKLDALEPYMSKRTLEMHWGEHHRGYVDGLNKQLEKSDL 82 JF31673 -------------------MVSLSPSLTHLPVTEWKSPKLPDWKRQTPPRKVVAYYGLKTPPYKLDALEPYMSKRTLEMHWGEHHRGYVDGLNKQLEKSDL 82 DlFSD1a LDGMSLEEVVVVSYNRGYFLPSFNNAAQAWNHDFFWESMKPGGGGKPSGELLQMIERDFGSFERFLSEFKSAAATQFGSGWAWLCYKANRLDVDNAINPS 198 DlFSD1b LYGYTMDELVKVTYNNGNPLPEFNNAAQVWNHDFFWESMQPGGGDMPRFGLLDQIEKDFGSFSNFRENFIEAALTLFGSGWVWLALKR------------ 170 JF31673 LYGYTMDELVKVTYNNGNPLPEFNNAAQVWNHDFFWESMQPGGGDMPRFGLLDQIEKDFGSFSNFRENFIEAALTLFGSGWVWLALKR------------ 170 DlFSD1a DEDKKLVVVKSPNAVNPLVWDYSPLLTIDVWEHAYYLDFQNRRPDYISVFMDKLVSWEAVSRRLEIAKARAAEREVEEEIRKQEEEKEQESDGEAVEMYL 298 DlFSD1b -EERRLEVMKTSNAINPLVWDDIPIISLDMWEHAYYLDYNNDKAKYVNVFMNHLVSWNAAMSRMARAEAFVNLGEPNIPIA------------------- 250 JF31673 -EERRLEVMKTSNAINPLVWDDIPIISLDMWE--------NDKAKYVNVFMNHLVSWNAAMSRMARAEAFVNLGEPKIPIA------------------- 242 DlFSD1a DSDADDLERD 310 DlFSD1b ---------- JF31673 ---------- C. MSDs DlMSD MALRSLFNTRTLA-----RPARTVGLGL--RGIQTVSLPDLQYDYGALEPAISGEIMQLHHQKHHQAYVTNYNKALEQLDQAISKGDTSTVVKLQSAIKF 93 GhMSD MALRSSITRRTLT-----LGLNSTMLLPLSRSLQTFSLPDLPYDYGALEPAISGEIMQLHHQKHHQTYITNYNKALEQLHEAIQKGDSSTVVKLQSAIKF 95 AtMSD MAIRCVASRKTLA-----GLKETSSRLLRIRGIQTFTLPDLPYDYGALEPAISGEIMQIHHQKHHQAYVTNYNNALEQLDQAVNKGDASTVVKLQSAIKF 95 PtMSD MALRSLVSRKTLG-----LG-----LKLQFRGLQTFSLPDLPYDYGALEPAISGEIMQLHHQKHHQTYITNYNKSLEQLHHAMEKGDSSAVVKLQSAIKF 90 OsMSD MALRTLASRKTLAAAALPLA-----AAAAARGVTTVALPDLPYDYGALEPAISGEIMRLHHQKHHATYVANYNKALEQLDAAVAKGDAPAIVHLQSAIKF 95 DlMSD NGGGHVNHSIFWKNLAPANEGGGEPPKSSLGWAIDTHFGSLEALVQKMNADGAALQGSGWVWLGLDKELKRLVVETTGNQDPLVTKGPSLVPLLGIDVLG 193 GhMSD NGGGHVNHSIFWKNLAPIREGGGEPPKASLGWAIDTHFGSLESLIQKMNAEGAGLQGSGWVWVGVNKELKKLVIETTPNQDPLVTKGPHLVPLLGID--- 192 AtMSD NGGGHVNHSIFWKNLAPSSEGGGEPPKGSLGSAIDAHFGSLEGLVKKMSAEGAAVQGSGWVWLGLDKELKKLVVDTTANQDPLVTKGGSLVPLVGID--- 192 PtMSD NGGGHVNHSIFWKNLTPVQEGGGEPPHGRLGWAIDEDFGSLESLIKKMSTEGAAVQGSGWVWLGLDKESKKLVVETTENQDPLVTKGP-LVPLLGVD--- 187 OsMSD NGGGHVNHSIFWNNLKPISEGGGDPPHAKLGWAIDEDFGSFEALVKKMSAEGAALQGSGWVWLALDKEAKKLSVETTANQDPLVTKGANLVPLLGID--- 192 DlMSD ACILPTVQECQTRLSEKHLESHELELCQ---------------- 221 GhMSD ------VWEHAYYLQYKNVRPDYLKNIWKVINWKYASEVYEKECA 231 AtMSD ------VWEHAYYLQYKNVRPEYLKNVWKVINWKYASEVYEKENN 231 PtMSD ------VWEHAYYLQYKNVRPDYLKNIWKVMNWKYAGEVYDKESS 226 OsMSD ------VWEHAYYLQYKNVRPDYLSNIWKVMNWKYAGEVYENATA 231 Additional file 8–The location of different transcription start sites (TSSs) in DlSODs. ATG indicates the start codon. The first nucleotide in each TSS is indicated either in red (A), green (T), pink (C), or yellow (G). Numbers above each nucleotide sequence indicate the numbers of TSSs.
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