The complete plastid genome of Artocarpus camansi: a high degree of conservation of the plastome structure in the family Moraceae

Ueric José Borges de Souza1, Luciana Cristina Vitorino2*, Layara Alexandre Bessa2, Fabiano Guimarães Silva2

1 Graduate Program in the Biodiversity and Biotechnology of the Legal Amazon Region – BIONORTE, Federal University of Tocantins, UFT, Avenue NS-15, Quadra 109, Plano Diretor Norte, 77001-090, Palmas, Tocantins, Brazil; [email protected] (U.J.B.S.). 2 Laboratory of Plant Mineral Nutrition, Instituto Federal Goiano campus Rio Verde, Highway Sul Goiana, Km 01, 75901-970, Rio Verde, Goiás, Brazil; [email protected] (L.C.V), [email protected] (L.A.B) and [email protected] (F.G.S.). * Correspondence: [email protected]; Tel.: +55 64 36205600 (L.C.V)

Figure S1. Genome sequencing coverage distribution of all reads that aligned in the in A. camansi plastid genome.

Table S1. Accession number and sampled plastid genomes obtained from GenBank.

Species Accession Genome Size GC (%) Moraceae Artocarpus camansi MW149075 160,096 bp 36.0% Artocarpus heterophyllus MK303549.1 160,389 bp 36.1% Antiaris toxicaria NC_042884.1 161,412 bp 35.9% Broussonetia kaempferi NC_047183.1 160,625 bp 35.6% Broussonetia kurzii NC_041637.1 162,170 bp 35.7% Broussonetia luzonica NC_047180.1 162,594 bp 35.7% Broussonetia monoica NC_047181.1 160,777 bp 35.8% Ficus carica NC_035237.1 160,602 bp 35.9% Ficus racemosa NC_028185.1 159,473 bp 35.9% Ficus religiosa NC_033979.1 160,627 bp 35.9% Morus celtidifolia NC_047236.1 159,485 bp 36.1% Morus indica NC_008359.1 158,484 bp 36.4% Morus mongolica NC_025772.2 158,459 bp 36.3% Morus notabilis NC_027110.1 158,680 bp 36.4% Malaisia scandens NC_047182.1 161,313 bp 35.9% Rhamnaceae Berchemia berchemiifolia NC_037477.1 160,410 bp 37.2% Berchemiella wilsonii NC_043912.1 160,076 bp 37.2% Rhamnus taquetii NC_045855.1 161,205 bp 37.1% Ziziphus jujuba NC_030299.1 161,466 bp 36.8% Ziziphus mauritiana NC_037151.1 161,543 bp 36.8% Ziziphus spina-christi NC_037152.1 161,615 bp 36.8% Cannabaceae Aphananthe aspera NC_039726.1 157,687 bp 36.4% Cannabis sativa cultivar Yoruba NC_027223.1 153,854 bp 36.7% Cannabis sativa cultivar Carmagnola NC_026562.1 153,871 bp 36.7% Celtis biondii NC_039727.1 159,001 bp 36.3% Celtis sinensis NC_048498.1 159,092 bp 36.3% Chaetachme aristata NC_039728.1 157,939 bp 36.1% Gironniera subaequalis NC_039729.1 157,807 bp 36.3% Humulus lupulus NC_028032.1 153,751 bp 36.8% Humulus scandens NC_039730.1 153,776 bp 36.9% Lozanella enantiophylla NC_039731.1 156,711 bp 36.6% Parasponia rugosa NC_039732.1 157,434 bp 36.3% Pteroceltis tatarinowii NC_039733.1 158,504 bp 36.3% Trema orientalis NC_039734.1 157,192 bp 36.3% Outgroup - Fabaceae Glycine soja NC_022868.1 152,217 bp 35.4% Vigna unguiculata NC_018051.1 152,415 bp 35.2%

Table S2. Base composition of the Artocarpus camansi plastid genome.

Regions A (%) T (U) (%) C (%) G (%) Length (bp) Genome 31.5 32.5 18.3 17.7 160,096 LSC 32.3 34.1 17.3 16.4 88,745 SSC 35.7 35.4 14.9 13.9 19,883 IR 28.6 28.7 20.6 22.1 25,734 Protein coding genes 31.1 31.9 17.2 19.9 69,204 *79 different genes 1st position 31.1 24.2 18.5 26.2 23,068 2nd position 29.5 33.5 19.7 17.4 23,068 3rd position 32.7 37.9 13.3 16.1 23,068

Table S 3. Genes with one or two introns in the Artocarpus camansi plastid genome, including the exon and intron length.

Exon I Intron I Exon II Intron II Exon III Gene name Location (bp) (bp) (bp) (bp) (bp) rps16 LSC 42 933 228 - - atpF LSC 159 718 411 - - rpoC1 LSC 432 800 1,623 - - petB LSC 6 805 642 - - petD LSC 9 742 477 - - rpl16 LSC 399 1,107 9 - - rpl2 IR 390 685 435 - - ndhB IR 777 685 756 - - ndhA SSC 552 1,157 540 - - ycf3 LSC 126 845 228 758 153 clpP LSC 69 892 294 697 228 rps12 IR 114 232 536 26 trnK-UUU LSC 35 2,556 37 - - trnG-UCC LSC 23 725 48 - - trnL-UAA LSC 35 501 50 - - trnV-UAC LSC 37 617 37 - - trnA-UGC IR 38 802 35 - - trnI-GAU IR 42 939 35 - -

Table S4. The Ka, Ks and Ka/Ks ratio of A. camansi and A. heterophyllus plastid genome for individual genes and region.

Gene groups Gene Ka Ks Ka/Ks Region rpl33 0,0268 0,02210 1,21267 LSC rpl20 0,027 0,0117 2,2991 LSC rpl36 0 0 0 LSC rpl14 0,004 0,0114 0,315789 LSC Large subunit of ribosomal proteins rpl16 0,007 0,0192 0,34375 LSC rpl2 0,007 0,0096 0,677083 IR rpl22 0,011 0,0452 0,234513 LSC rpl23 0 0 0 IR rpl32 0,025 0 0 SSC rps16 0,005 0 0 LSC rps2 0,007 0,0123 0,601626 LSC rps14 0 0 0 LSC rps4 0,004 0 0 LSC rps18 0,004 0 0 LSC rps11 0 0,0492 0 LSC Small subunit of ribosomal proteins rps8 0,016 0 0 LSC rps3 0,01 0,0073 1,356164 LSC rps19 0,033 0,0164 2,036585 LSC rps7 0 0 0 IR rps12 0 0,0105 0 IR rps15 0,01 0,0342 0,280702 SSC rpoC2 0,007 0,0063 1,095238 LSC rpoC1 0,003 0,0063 0,507937 LSC DNA-dependent RNA polymerase rpoB 0,006 0,0121 0,471074 LSC rpoA 0,005 0,0047 1,148936 LSC psaB 6E-04 0,012 0,05 LSC psaA 0 0,0095 0 LSC Photosystem I psaI 0,013 0 0 LSC psaJ 0 0 0 LSC psaC 0 0 0 SSC psbA 0,001 0,0121 0,099174 LSC psbK 0 0,0247 0 LSC psbI 0,013 0 0 LSC psbM 0 0 0 LSC psbD 0,001 0,0081 0,148148 LSC psbC 9E-04 0,0029 0,310345 LSC psbZ 0 0 0 LSC Photosystem II psbJ 0 0 0 LSC psbL 0,013 0 0 LSC psbF 0 0 0 LSC psbE 0 0 0 LSC psbB 0 0,0138 0 LSC psbT 0 0,0864 0 LSC psbN 0 0 0 LSC psbH 0 0 0 LSC ndhJ 0 0 0 LSC ndhK 0 0,0059 0 LSC ndhC 0,007 0,0242 0,301653 LSC ndhB 9E-04 0 0 IR ndhF 0,009 0,0193 0,476684 IR/SSC NADH dehydrogenase ndhD 0,005 0,0056 0,946429 SSC ndhE 0 0,0143 0 SSC ndhG 0,003 0,0078 0,320513 SSC ndhI 0,003 0,0178 0,146067 SSC ndhA 0,004 0,0152 0,243421 SSC ndhH 0,002 0,019 0,115789 SSC petN 0 0 0 LSC Cytochrome b/f complex petA 0,003 0,0088 0,306818 LSC petL 0,015 0 0 LSC petG 0 0 0 LSC petB 0,002 0,0392 0,053571 LSC petD 0,011 0,0172 0,645349 LSC atpA 0,004 0,0109 0,40367 LSC atpF 0,009 0 0 LSC atpH 0 0 0 LSC ATP synthase atpI 0,002 0,0111 0,162162 LSC atpE 0,003 0 0 LSC atpB 9E-04 0 0 LSC RubisCo large subunit rbcL 9E-04 0,0266 0,033835 LSC Maturase K matK 0,008 0,0119 0,655462 LSC Envelope membrane protein cemA 0 0,0339 0 LSC Subunit of acetyl-CoAcarboxylase accD 0,005 0,0097 0,525773 LSC C-type cytochrome synthesis gene ccsA 0,005 0,014 0,378571 SSC Protease clpP 0,009 0,0073 1,232877 LSC ycf3 0,003 0,0085 0,305882 LSC ycf4 0,015 0,008 1,8125 LSC Conserved hypothetical chloroplast open reading frames ycf2 0,004 0,002 1,8 IR ycf1 0,001 0,0046 0,282609 IR/SSC ycf15 0,014 0,0212 0,675 IR