Computational protocol: The genus Gennadas (Benthesicymidae: Decapoda): morphology of copulatory characters, phylogeny and coevolution of genital structures

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Protocol publication

[…] The material used for this study is primarily from Danish and Russian expeditions exploring the pelagic zone of the world oceans. Most material used for the study is stored in the crustacean collection of the Natural History Museum of Denmark (NHMD) (electronic supplementary material, appendix S1). The work involved sorting and identification of the about 200 samples of Gennadas; individuals were then selected for further study by SEM.Prior to treatment for SEM, relevant parts (such as the thelycum, the petasma and the appendix masculina) of selected specimens were dissected in order to expose important structures for further study. The material was dehydrated in a graded ethanol series, critical point dried, mounted and coated with a mixture of platinum and palladium following standard procedures []. The SEM used was a JEOL JSM-6335F (with a field emission gun). The images were processed and arranged in standard graphical software such as CorelDraw X7 and various Adobe programs. The position and structure of the complete Gennadas petasma, which consists of two symmetrical halves, are represented in . Petasmata and thelyca of all valid species are represented in figures , and ,, respectively. Figure 1. Figure 2. Figure 3. Figure 4. Figure 5. [...] To assess possible coevolution of characters, all morphological characters were divided into nine groups associated with the following structures (see electronic supplementary material, appendix S2 for character scoring): (i) sixth thoracic sternite in females (characters 1–9), (ii) anterior part of the seventh thoracic sternite in females (characters 10–25), (iii) posterior part of the seventh thoracic sternite in females (characters 26–39), (iv) eighth thoracic sternite in females (characters 40–48), (v) pars interna (PI) of the petasma (‘internal lobe’ in []: characters 49–50), (vi) lobus accessorius (LA) of the petasma (characters 51–56), (vii) pars media (PM) of the petasma (‘median lobe’ in []: characters 57–64) and (viii) pars externa (PE) of the petasma (‘lateral lobe’ in []: characters 65–74).In the resulting ‘total evidence’ phylogenetic tree, we considered each node as an evolutionary event and calculated how many character states within each group synchronously changed at each node of the tree. Changes in the character states at each node were considered as binary parameters (absent or present) and further analysed via ANOSIM and non-metric MDS analysis and hierarchical clustering (single linkage algorithm and Kulzcynsky similarity index).Calculations and analyses were carried out with the use of Excel, STATISTICA and PAST v. 3.04 []. Correlations were considered significant if p < 0.05. […]

Pipeline specifications

Software tools CorelDraw, Statistica
Applications Miscellaneous, Phylogenetics
Organisms Homo sapiens