plosone-phylo
Figure 2
Penaeid shrimp ALFs cluster into four groups.ALF sequences from penaeid shrimps and horseshoe crabs, and scygonadins from crabs (outgroup) were aligned with MAFFT alignment program prior to phylogenetic analysis. The tree was constructed using the Neighbour-Joining method (Pairwise deletion) in MEGA 4. Bootstrap sampling was reiterated 1,000 times. Sequences included in analyses were the following: (i) Shrimp ALFs: black tiger shrimp Penaeus monodon (Penmon ALF-A1 or ALFPm2: ABP73291; Penmon ALF-A1 or ALFPm1: ABP73290; Penmon ALF-B1 or ALFPm3: ABP73289; Penmon ALF-B2 and -B3 [47]; Penmon ALF-B4: ADC32520; Penmon ALF-C1 or ALFPm6: ADM21460; Penmon ALF-C2 or ALFPm6: AER45468), kuruma prawn (Marjap ALF-A1 or MjALF2: BAH22585; Marjap ALF-C1 or M-ALF: BAE92940), fleshy prawn Fenneropenaeus chinensis (Fenchi ALF-B1 or ALFFc: AAX63831), Indian prawn F. indicus (Fenind ALF-B1: ADE27980; Fenind ALF-B2: ADK94454), pink shrimp Farfantepenaeus paulensis (Farpau ALF-B1 or ALFFpau: ABQ96193), Atlantic white shrimp Litopenaeus setiferus (Litset ALF-D1: BE846661), Pacific white leg shrimp L. vannamei (Litvan ALF-A1 or LvALF1: EW713395; Litvan ALF-A2: FE087264; Litvan ALF-B1 or ALFLv3: ABB22833; Litvan ALF-B2 or ALFLv2: ABB22832; Litvan ALF-C1: FE153599; Litvan ALF-C2: FE176556; Litvan ALF-C3: FE058235; Litvan ALF-C4: FE079082; Litvan ALF-C5: FE088301; Litvan ALF-C6: FE078559; Litvan ALF-C7: FE079755; Litvan ALF-C8: FE105941; Litvan ALF-C9: FE090668; Litvan ALF-C10: FE052210; Litvan ALF-C11: FE088625; Litvan ALF-C12 or: LvALF2: EW713396; Litvan ALF-D1: FE152534; Litvan ALF-D2: FE151634; Litvan ALF-D3: FE110967; Litvan ALF-D4: FE115964), Southern white shrimp L. schmitti (Litsch ALF-B1 or ALFLsch: ABJ90465) and blue shrimp L. stylirostris (Litsty ALF-B1: AGH32549; Litsty ALF-D1: AAY33769); (ii) Horseshoe crab ALFs: Chinese horseshoe crab Tachypleus tridentatus (TACTR_ALF: P07087; TACTR2_ALF: AAK00651), Atlantic horseshoe crab Limulus polyphemus (LIMPO_ALF: P07086) and Southeast Asian horseshoe crab Carcinoscorpius rotundicauda (CARRO_ALF: CK086627); (iii) Scygonadins (outgroup): giant mud crab Scylla serrata (S serrata scygonadin: AAW57403; S serrata scygonadin-2: ABI96918; S serrata SSAP: ABM05493) and green crab Carcinus maenas (C. maenas scygonadin: DY307310).
Figure 2
Penaeid shrimp ALFs cluster into four groups.ALF sequences from penaeid shrimps and horseshoe crabs, and scygonadins from crabs (outgroup) were aligned with MAFFT alignment program prior to phylogenetic analysis. The tree was constructed using the Neighbour-Joining method (Pairwise deletion) in MEGA 4. Bootstrap sampling was reiterated 1,000 times. Sequences included in analyses were the following: (i) Shrimp ALFs: black tiger shrimp Penaeus monodon (Penmon ALF-A1 or ALFPm2: ABP73291; Penmon ALF-A1 or ALFPm1: ABP73290; Penmon ALF-B1 or ALFPm3: ABP73289; Penmon ALF-B2 and -B3 [47]; Penmon ALF-B4: ADC32520; Penmon ALF-C1 or ALFPm6: ADM21460; Penmon ALF-C2 or ALFPm6: AER45468), kuruma prawn (Marjap ALF-A1 or MjALF2: BAH22585; Marjap ALF-C1 or M-ALF: BAE92940), fleshy prawn Fenneropenaeus chinensis (Fenchi ALF-B1 or ALFFc: AAX63831), Indian prawn F. indicus (Fenind ALF-B1: ADE27980; Fenind ALF-B2: ADK94454), pink shrimp Farfantepenaeus paulensis (Farpau ALF-B1 or ALFFpau: ABQ96193), Atlantic white shrimp Litopenaeus setiferus (Litset ALF-D1: BE846661), Pacific white leg shrimp L. vannamei (Litvan ALF-A1 or LvALF1: EW713395; Litvan ALF-A2: FE087264; Litvan ALF-B1 or ALFLv3: ABB22833; Litvan ALF-B2 or ALFLv2: ABB22832; Litvan ALF-C1: FE153599; Litvan ALF-C2: FE176556; Litvan ALF-C3: FE058235; Litvan ALF-C4: FE079082; Litvan ALF-C5: FE088301; Litvan ALF-C6: FE078559; Litvan ALF-C7: FE079755; Litvan ALF-C8: FE105941; Litvan ALF-C9: FE090668; Litvan ALF-C10: FE052210; Litvan ALF-C11: FE088625; Litvan ALF-C12 or: LvALF2: EW713396; Litvan ALF-D1: FE152534; Litvan ALF-D2: FE151634; Litvan ALF-D3: FE110967; Litvan ALF-D4: FE115964), Southern white shrimp L. schmitti (Litsch ALF-B1 or ALFLsch: ABJ90465) and blue shrimp L. stylirostris (Litsty ALF-B1: AGH32549; Litsty ALF-D1: AAY33769); (ii) Horseshoe crab ALFs: Chinese horseshoe crab Tachypleus tridentatus (TACTR_ALF: P07087; TACTR2_ALF: AAK00651), Atlantic horseshoe crab Limulus polyphemus (LIMPO_ALF: P07086) and Southeast Asian horseshoe crab Carcinoscorpius rotundicauda (CARRO_ALF: CK086627); (iii) Scygonadins (outgroup): giant mud crab Scylla serrata (S serrata scygonadin: AAW57403; S serrata scygonadin-2: ABI96918; S serrata SSAP: ABM05493) and green crab Carcinus maenas (C. maenas scygonadin: DY307310).