Figure 1.
Maximum-likelihood phylogeny reconstructed using the D1–D5 region of the 28S rRNA gene.
The DNA substitution model parameters estimated by RAxML were; f(A) 0.24, f(C) 0.24, f(G) 0.33, f(T) 0.19; R(AC) 0.53, R(AG) 1.73, R(AAT) 1.0, R(CG) 0.52, R(CT) 5.71, R(GT) 1.0; alpha 0.52; pinvar 0.43. Sequences produced during this study are in bold. Sampling locations for each taxon are given in Table S1. Other sequences were downloaded from Genbank (A. queenslandica, EF654518, Haplosclerina sp., AY561860). Taxon labels showing an * are those comprised of sequences from two specimens, in each case the D3 sequence was downloaded from Genbank (C. multiformis, AF441344 C. plicifera, AF441345; H. toxius, AF441342; H. vansoesti, AF441346; N. olemda, AF441353 and H. xena, AY319327). Numbers on the branches represent bootstrap proportions/posterior probabilities.
Figure 2.
Maximum-likelihood phylogeny reconstructed from the D1 region of the 28S rRNA gene.
The DNA substitution model parameters estimated by RAxML were; f(A) 0.26, f(C) 0.24, f(G) 0.33, f(T) 0.17; R(AC) 0.69, R(AG) 2.17, R(AAT) 1.39, R(CG) 0.61, R(CT) 5.12, R(GT) 1.0; alpha 0.61; pinvar 0.36. Sequences produced during this study are in bold. Sampling locations for each taxon are given in Table S1. Other sequences were downloaded from Genbank (Haplosclerida A, AY561856, Haplosclerina C AY561861, Haplosclerina B, AY561860, Haliclona sp, AY561862, H. mucosa, AJ225831, H. fulva, AJ225829, P. ficiformis, AJ225828, A. queenslandica, EF654518, Xestospongia sp., AY561853). Numbers on the branches represent bootstrap proportions/posterior probabilities.
Figure 3.
Maximum-likelihood phylogeny reconstructed from the Folmer (5′) region of the cox1 gene from only Haplosclerida taxa.
The DNA substitution model parameters estimated by RAxML were; f(A) 0.26, f(C) 0.15, f(G) 0.22, f(T) 0.37; R(AC) 1.59, R(AG) 3.12, R(AT) 0.86, R(CG) 0.44, R(CT) 5.28, R(GT) 1.0; alpha 0.7; pinvar 0.44. Sequences produced during this study are in bold. Sampling locations for each taxon are given in Table S1. Other sequences were downloaded from Genbank (A. compressa, EF519558, P. ficiformis, EF519663, H. amphioxa, AJ843892, H. manglaris, EF519626, H. implexiformis, EF519625, C. plicifera, EU237477, H. tubifera, EF519624, H. implexiformis B, EF519623, C. vaginalis A, GQ415412, C. fallax, GQ415417, N. proxima, AM076980, X. muta A, EF519699, X. muta B, EU716650, C. vaginalis B, EF095182, X. muta C, EF095185, N. digitalis, EF519658, N. erecta A, EF519660, N. erecta B, EF519659, N. alba, EF519654, A. queenslandica, DQ915601, H. caerulea, EF519619, C. armigera EF519578, C. vaginalis C–G, EF519577, EF519579, EF519581, GQ304697, GQ304613). Numbers on the branches represent bootstrap proportions/posterior probabilities.