| Literature DB >> 22379388 |
David R Maddison1, Karen A Ober.
Abstract
The phylogeny of ground beetles of supertribe Trechitae is inferred using DNA sequences of genes that code for 28S ribosomal RNA, 18S ribosomal RNA, and wingless. Within the outgroups, austral psydrines are inferred to be monophyletic, and separate from the three genera of true Psydrina (Psydrus, Nomius, Laccocenus); the austral psydrines are formally removed from Psydrini and are treated herein as their own tribe, Moriomorphini Sloane. All three genes place Gehringia with Psydrina. Trechitae is inferred to be monophyletic, and sister to Patrobini.Within trechites, evidence is presented that Tasmanitachoides is not a tachyine, but is instead a member of Trechini. Perileptus is a member of subtribe Trechodina. Against Erwin's hypothesis of anillines as a polyphyletic lineage derived from the tachyine genus Paratachys, the anillines sampled are monophyletic, and not related to Paratachys. Zolini, Pogonini, Tachyina, and Xystosomina are all monophyletic, with the latter two being sister groups. The relationships of the subtribe Bembidiina were studied in greater detail. Phrypeus is only distantly related to Bembidion, and there is no evidence from sequence data that it belongs within Bembidiina. Three groups that have been recently considered to be outside of the large genus Bembidion are shown to be derived members of Bembidion, related to subgroups: Cillenus is related to the Ocydromus complex of Bembidion, Zecillenus is related to the New Zealand subgenus Zeplataphus, and Hydrium is close to subgenus Metallina. The relationships among major lineages of Trechitae are not, however, resolved with these data.Entities:
Keywords: Bembidiini; Carabidae; DNA; Trechinae; Trechitae; ground beetles; molecular phylogeny
Year: 2011 PMID: 22379388 PMCID: PMC3286250 DOI: 10.3897/zookeys.147.1871
Source DB: PubMed Journal: Zookeys ISSN: 1313-2970 Impact factor: 1.546
Figure 1.Phylogenies of Trechitae from morphological studies A Strict consensus tree of most parsimonious trees from larval data, with all characters treated as unordered, from Grebennikov (2008); this is the tree presented in Grebennikov (2008: Fig. 3) B Strict consensus tree of most parsimonious trees from larval data, with some characters treated as ordered, as specified by Grebennikov (2008); this tree is not presented in that paper, but was inferred from the described conditions C “Best fit” tree presented by Roig-Juñent and Cicchino (2001) based upon adult morphological data.
Outgroup taxon sampling. Four-digit numbers in entries are D.R. Maddison voucher numbers; further information on the specimens is given in the Appendix; where two numbers are listed, the sequence was formed by combining data from both specimens. Other entries are GenBank numbers of previously published sequences from Maddison et al. (1999a, 1999b), Ober (2002), and Ober and Maddison (2008).
| AF002779 | AF398707 | AF398623 | |
| AF012484 | AF398683 | AF398566 | |
| AF012482 | AF398648 | AF398601 | |
| AF012481 | AF398640 | AF398602 | |
| AF398722 | AF398692 | AF398603 | |
| 0669 | 2247 | 0669 | |
| AF012483 | 2200 | 2200 | |
| AF012486 | AF398675 | AF398596 | |
| AF002784 | AF398684 | 1627 | |
| 0893 | AF438100 | AF437971 | |
| AF012512 | AF398702 | AF398591 | |
| AF002785 | AF398699 | AF398587 | |
| AF002786 | AF398700 | AF398613 | |
| 0631,1710 | 0631 | 0631 |
Taxon sampling of trechites. Four-digit numbers in entries are D.R. Maddison voucher numbers; further information on the specimens is given in the Appendix; where two numbers are listed, the sequence was formed by combining data from both specimens. Other entries are GenBank numbers of previously published sequences from Maddison et al. (1999a, 1999b), Ober (2002), and Ober and Maddison (2008).
| 1808 | 0691 | ||
| 0678 | AF438112 | AF437978 | |
| 1707 | 0824 | 1707 | |
| 0767 | |||
| 0823 | 0823 | ||
| 0705 | 0705 | 0705 | |
| 0606 | |||
| 1709 | 0723 | 1709 | |
| 1575 | 0762 | ||
| AF002793 | |||
| AF398673 | 0587 | ||
| 0571 | 0571 | 0571 | |
| 1066 | |||
| 0670 | 0670 | ||
| 1076 | |||
| 0575 | 0575 | 0575 | |
| AF012487 | 0453 | 0453 | |
| AF012488 | 0387 | 0387 | |
| AF002787 | 0354 | 0354 | |
| AF002788 | 0339 | 0339 | |
| AF002789 | AF438060 | AF437938 | |
| 1711 | 0679 | 0679 | |
| 0703 | 0530 | ||
| 0988 | 0988 | 0988 | |
| 0605 | 0605 | ||
| 0410 | 0410 | ||
| 0411 | 0411 | 0411 | |
| 0761 | |||
| 0713 | 0713 | ||
| AF002790 | 0429 | 0429 | |
| 0717, 0718 | 0718 | ||
| 0760 | |||
| 0604 | 0604 | ||
| 0573 | AF438141 | AF438002 | |
| AF012489 | 0409 | 0409 | |
| 0989 | 0989 | ||
| 0684 | 0684 | 0684 | |
| 0592 | 0592 | ||
| 0690 | 0690 | ||
| 1084 | 1084 | ||
| 0572,1718 | 0572 | 0572 | |
| 0696 | |||
| 0585 | 0585 | ||
| 0574 | |||
| AF002792 | 0267 | 0267 | |
| 0576 | 0576 | ||
| 0569 | 0569 | ||
| 0776 | 0692 | ||
| 0603 | 0603 | ||
| 0714 | 0714 | ||
| 0916 | 0916 | ||
| 0602 | 0602 | ||
| 0444 | 0444 | ||
| EF648613 | EF648838 | EF649474 | |
| EF648618 | EF648837 | EF649481 | |
| 0896 | 0896 | ||
| EF648659 | EF649056 | EF649609 | |
| EF648620 | EF648842 | EF649480 | |
| 0763 | 0763 | ||
| AF012490 | 0260 | 0262 | |
| 0895 | 0895 | ||
| 0601 | 0601 | ||
| 0676 | 0676 | 0676 | |
| 0607 | 0607 | 0607 | |
| 0595 | 0595 | 0595 | |
Primers used for DNA amplification and sequencing. Dir: direction of primer, either forward (F) or reverse (R). Syn: primer synonym. Kind: primer used for original PCR amplification and sequencing (A) or primer used only for sequencing (S). Original references for primer sequences are given in Maddison et al. (2008). Primer pairs used in earlier PCR reactions for wingless were 5wg-3wg, 5wgB-3wg2, and B5wg1-B3wg2; more recent, and reliable, reactions used the pairs wg550F-wgABRz or wg578F-wgABR.
| Gene | Primer | Syn | Dir | Kind | Sequence |
|---|---|---|---|---|---|
| 28S | LS58F | D1 | F | A | GGGAGGAAAAGAAACTAAC |
| LS998R | D3 | R | A | GCATAGTTCACCATCTTTC | |
| 18S | SS27F | 518S | F | A | TATGCTTGTCTCAAAGATTAA |
| S1893R | 18L | R | A | CACCYACGGAAACCTTGTTACGACTT | |
| SS398F | 18Sai | F | S | CCTGAGAAACGGCTACCACATC | |
| SS1054F | 760F | F | S | ATCAAGAACGAAAGT | |
| SS1090R | 18Sbi | R | S | GAGTCTCGTTCGTTATCGGA | |
| SS1554R | 909R | R | S | GTCCTGTTCCATTATTCCAT | |
| wg | wg550F | F | A | ATGCGTCAGGARTGYAARTGYCAYGGYATGTC | |
| wgAbRZ | R | A | CACTTNACYTCRCARCACCARTG | ||
| wg578F | F | A | TGCACNGTGAARACYTGCTGGATG | ||
| wgAbR | R | A | YTCGCAGCACCARTGGAA | ||
| B5wg1 | F | A | GARTGYAAGTGTCAYGGYATGTCTGG | ||
| 5wg | F | A | GARTGYAARTCYCAYGGYATGTCTGG | ||
| 5wgB | F | A | ACBTGYTGGATGCGNCTKCC | ||
| 3wg2 | R | A | CTCGCARCACCARTGGAATGTRCA | ||
| B3wg2 | R | A | ACTCGCARCACCAGTGGAATGTRCA | ||
| 3wg | R | A | ACTCGCARCACCARTGGAATGTRCA |
Figure 3.Majority-rule consensus tree of trees sampled in Bayesian analysis, with branch lengths proportional to average branch lengths across trees that contain that branch, for 18S rDNA data. See caption of Fig. 2 for additional details.
Figure 4.Majority-rule consensus tree of trees sampled in Bayesian analysis, with branch lengths proportional to average branch lengths across trees that contain that branch, for the complete wingless data. See caption of Fig. 2 for additional details.
Figure 5.Majority-rule consensus tree of trees sampled in Bayesian analysis for all three genes analyzed together. Ovals on branches indicate support for the clade based upon Bayesian (left), maximum likelihood (center), and parsimony (right) analyses. Darkest tones indicate strongest support for (grays and black) or against (pinks) the clade, with values indicating posterior probability expressed as a percentage (Bayesian), or bootstrap percentage (likelihood and parsimony).
Support values for various groups outside of Bembidiini (sensu lat.): B: Bayesian posterior probability, expressed as a percentage; ML: Maximum likelihood analysis; P: parsimony analysis. For maximum likelihood and parsimony analyses, numbers indicate the bootstrap support expressed as a percentage; check marks indicate that the clade is present in the optimal (maximum likelihood or post parsimonious) trees but with bootstrap value below 50; x indicates that a contradictory clade was present in the optimal (maximum likelihood or post parsimonious) trees but with bootstrap value below 50; negative values indicate Bayesian posterior probability or bootstrap support for a contradictory clade. Boxes in gray to black indicate support for the clade; boxes in pink to red indicate support against that clade, with darker colors indicating stronger support. Dashes indicate no support for or against the clade because of insufficient taxon sampling for that gene; blank boxes indicate no support for or against the clade because of lack of resolution in the inferred trees. Abbreviations: “inc.” = “including”, “exc.” = “excluding”.
| B | ML | P | B | ML | P | B | ML | P | B | ML | P | B | ML | P | |
| 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | -100 | -78 | -75 | x | ✓ | ||
| 100 | 99 | 70 | 100 | 99 | 70 | 56 | x | x | 88 | ✓ | 88 | ✓ | ✓ | ||
| 100 | 92 | 80 | 54 | 58 | 66 | -66 | x | x | 100 | 58 | 100 | 59 | ✓ | ||
| 100 | 93 | 66 | 100 | 70 | 53 | -66 | x | x | 100 | 77 | 100 | 75 | ✓ | ||
| 99 | 79 | 86 | 100 | 83 | 64 | -66 | x | x | 100 | 98 | 78 | 100 | 98 | 75 | |
| 100 | 95 | 98 | 62 | 70 | 96 | 100 | 80 | 70 | 100 | 99 | 80 | 100 | 100 | 79 | |
| 94 | 64 | 78 | -66 | x | ✓ | -89 | x | x | 100 | 82 | 100 | 79 | |||
| 99 | 79 | 86 | 100 | 83 | 64 | 95 | ✓ | 60 | - | - | - | - | - | - | |
| 100 | 100 | 100 | 100 | 98 | 97 | 100 | 72 | 72 | 100 | 100 | 100 | 100 | 100 | 100 | |
| 100 | 100 | 100 | 100 | 96 | 96 | 100 | 100 | 100 | 100 | 99 | 97 | 100 | 97 | 92 | |
Support values for various groups of Bembidiini (sens. lat.). See legend of Table 4 for more explanation.
| B | ML | P | B | ML | P | B | ML | P | B | ML | P | B | ML | P | |
| -88 | x | x | -85 | x | x | -98 | x | x | -100 | -63 | x | -100 | -56 | x | |
| 100 | 92 | 85 | 100 | 72 | 66 | -62 | x | x | 68 | x | x | 80 | ✓ | ✓ | |
| 100 | 88 | x | 99 | 67 | x | -62 | x | x | 99 | ✓ | x | 87 | ✓ | x | |
| 100 | 99 | 100 | 100 | 80 | 75 | 89 | 71 | 69 | 99 | 88 | 85 | 100 | 88 | 89 | |
| 87 | ✓ | ✓ | 93 | ✓ | ✓ | - | - | - | - | - | - | - | - | - | |
| x | x | x | x | - | - | - | - | x | 51 | x | x | ||||
| 91 | ✓ | ✓ | x | x | 100 | 76 | 78 | 100 | ✓ | ✓ | 89 | x | x | ||
| 75 | x | ✓ | x | -54 | x | -57 | 89 | ✓ | ✓ | 83 | x | ||||
| 100 | 91 | 89 | 91 | ✓ | ✓ | 100 | 98 | 98 | 100 | 98 | 96 | 100 | 95 | 93 | |
| 100 | 91 | 89 | 52 | ✓ | ✓ | -100 | -91 | -91 | 100 | 98 | 96 | 100 | 95 | 93 | |
| 100 | 87 | 88 | 91 | ✓ | ✓ | 100 | 98 | 98 | 98 | 60 | 67 | 97 | 57 | 66 | |
| 100 | 84 | 64 | 99 | 79 | 78 | - | - | - | 99 | ✓ | ✓ | 93 | ✓ | ✓ | |
Figure 6.Summary of subtribal and tribal relationships supported by individual genes. Triangles indicate monophyletic groups; quadrangles represent paraphyletic groups A 28S rDNA B 18S rDNA C wingless.
Figure 7.Summary of relationships in Trechitae and related taxa. Branches (including those subtended by triangles) indicate monophyletic groups supported by the combined analyses and at least two of the genes; quadrangles indicate groups whose status is unresolved.
Support values for various groups outside of Bembidiini (sensu lat.): comparison of results for 18S rDNA between unconstrained and constrained analyses. For the “Trechitae constrained” analyses, all of Trechitae was constrained to be monophyletic. For the “Trechini constrained analyses”, all of Trechini was constrained to be monophyletic for the Bayesian analysis; for the remaining analyses, Trechini was constrained to be monophyletic, except that was unconstrained, and could move anywhere in the tree if that were optimal. “n/a” indicates that support values for that group are irrelevant as the group was forced to be monophyletic; for meaning of other symbols and colors, see legend of Table 4.
| B | ML | P | B | ML | P | B | ML | P | |
| 56 | x | x | 59 | x | -63 | 50 | ✓ | x | |
| -66 | x | x | 99 | 95 | 94 | 94 | ✓ | 53 | |
| -66 | x | x | n/a | n/a | n/a | x | ✓ | ||
| -66 | x | x | -85 | x | ✓ | n/a | n/a | n/a | |
| 100 | 80 | 70 | 99 | 82 | 69 | 99 | 82 | 70 | |
| -89 | x | x | -85 | x | 64 | 3 | x | ||
| 95 | ✓ | 60 | 89 | ✓ | 67 | 100 | 76 | 84 | |
Figure 2.Majority-rule consensus tree of trees sampled in Bayesian analysis, with branch lengths proportional to average branch lengths across trees that contain that branch, for 28S rDNA data. Branch lengths were reconstructed by MrBayes; scale bar units are substitutions per site. Thickness and shade of branches indicate support for that clade, based upon estimated Bayesian Posterior Probability percentages (BPP), Maximum Likelihood bootstrap values (MLBoot), and parsimony bootstrap values (parsBoot).
Locality data for specimens sequenced in this study. # is the D.R. Maddison voucher number.
| 0669 | Australia: North Queensland: Devil’s Thumb via Mossman | |
| 2247 | Australia: North Queensland: Upper Whitehall Gully | |
| 2200 | Chile: Reg. IX: Parque Nacional Nahuelbuta | |
| 1627 | USA: New Mexico: Gila National Forest, Pine Flats Campground | |
| 0893 | USA: Arizona: Pima Co., Rincon Peak | |
| 1808, 0691 | México: Sonora: Alamos, Rio Cuchujaqui | |
| 0678 | Republic of South Africa: Kwazulu-Natal, Ngome Forest Reserve | |
| 1707 | Spain: Madrid: Rio Cofio | |
| 0824 | Russia: NW Caucasus: Krasnodar Dist., r. Belaya, Nikel | |
| 0767 | Australia: Queensland: Gray’s Waterhole, Gayndah. | |
| 0823 | Russia: NW Caucasus: Krasnodar Dist., r. Belaya, Nikel | |
| 0705 | Australia: Queensland: Cow Bay | |
| 0606 | Madagascar: Fianarantsoa Province: Ranomafana National Park | |
| 1709 | Republic of South Africa: North Cape Prov.: Farm Klipdam | |
| 1575, 0762 | Australia: Queensland: Gayndah,Gray’s Waterhole | |
| 0587 | USA: Montana: Glacier Co., Divide Creek | |
| 0571 | Chile: Malleco Pr.: Coimallin area, 8.2 km NW Los Portones | |
| 1066 | Chile: Malleco Pr.: Coimallin area, 8.2 km NW Los Portones | |
| 0670 | Argentina: Tierra Del Fuego: 78 km E. of Ushuaia. | |
| 1076 | Costa Rica: Cerro de la Muerte | |
| 0575 | Chile: Palena Pr.: Austral Highway km 67.9 (11 km S. Contao turnoff) | |
| 0453 | Chile: Valdivia Province: Rincón de la Piedra, 14.8 km SE Valdivia | |
| 0387 | New Zealand: South Island, Canterbury Prov, Arthur’s Pass Nat. Park | |
| 0354 | New Zealand: South Island, Canterbury Prov, Arthur’s Pass Nat. Park | |
| 0339 | Australia: Tasmania: Mount Field N.P., Lake Dobson Rd., E end Wombat Moor | |
| 1711, 0679 | Spain: Cádiz: El Puerto de Sta. Maria | |
| 0703, 0530 | USA: California: Marin Co., Tiburon Peninsula | |
| 0988 | Malaysia: Sabah: Kinabatangan River | |
| 0605 | USA: Arizona: Pima Co., Tucson | |
| 0410 | USA: Arizona: Santa Cruz Co., Santa Cruz River near Tumacacori | |
| 0411 | USA: Arizona: Santa Cruz Co., Santa Cruz River near Tumacacori | |
| 0761 | Republic of South Africa: Kwa-Zulu-Natal: Near Bayala | |
| 0713 | Republic of South Africa: North Cape Prov.: Farm Klipdam | |
| 0429 | USA: Arizona: Pima Co., Arivaca Creek | |
| 0717, 0718 | USA: Arizona: Gila Co., Gila River near Winkelman | |
| 0760 | USA: California: San Diego Co., Batiquitos Lagoon | |
| 0604 | USA: Arizona: Gila Co., Winkelman | |
| 0573 | USA: Mississippi: Noxubee Co., Noxubee Nat. Wildlife Refuge | |
| 0409 | Ecuador: Sucumbios: Cuyabeno Faunal Reserve | |
| 0989 | Ecuador: Orellana Province: Tiputini | |
| 0684 | USA: Mississippi: Noxubee Co., Noxubee Nat. Wildlife Refuge | |
| 0592 | Australia: Queensland: Mt. Lewis Rd | |
| 0690 | USA: Georgia: Habersham Co., Big Panther Creek Trail | |
| 1084 | USA: North Carolina: Graham Co., Santeetlah Lake | |
| 0572, 1718 | Spain: Cádiz: Tarifa | |
| 0696 | New Zealand: 3.5 km N Rapahoe | |
| 0585 | USA: Alaska: mile 412.3 Dalton Highway | |
| 0574 | Nepal: Prov. Karnali, Dolpo, Tripurakot Flußufer | |
| 0267 | USA: Massachusetts: Norfolk Co., Jamaica Plain | |
| 0576 | USA: Utah: Abajo Mountains | |
| 0569 | Belgium: Schorisse | |
| 0776 | USA: California: Del Norte Co., Smith River | |
| 0692 | USA: Montana: Jefferson Co., Boulder River at Galena Gulch | |
| 0603 | Italy: Tuscany: Vallombrosa | |
| 0714 | Peru: Pisac, tributary of Rio Urubamba, 3020m | |
| 0916 | China: Yunnan Prov.: Gaoligong Shan, Nujiang Prefecture, 13.5 air km SSW of Gof Gonshan | |
| 0602 | Germany: Wadden Sea, Mellum Island | |
| 0444 | USA: Arizona: Cochise Co., 2.2 km S of Willcox | |
| 0896 | USA: Washington: Columbia Co., Blue Mountains | |
| 0763 | USA: Nebraska: Lancaster Co., Lincoln | |
| 0260 | USA: Arizona: Cochise Co., Turkey Creek, Chiricahua Mtns | |
| 0895 | Canada: Ontario: Burlington | |
| 0601 | Canada: British Columbia: Alexander Creek on highway 3 | |
| 0676 | Canada: Alberta: Bayette Lake near Flatbush | |
| 0607 | New Zealand: Tekapo River Delta, Lake Benmore | |
| 0595 | New Zealand: Foxton Beach, Manuwatu | |