Biodiversity Data Journal :
Data Paper (Biosciences)
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Corresponding author: Sónia Ferreira (hiporame@gmail.com)
Academic editor: Paolo Biella
Received: 08 Jun 2021 | Accepted: 01 Aug 2021 | Published: 24 Sep 2021
© 2021 Sónia Ferreira, Pjotr Oosterbroek, Jaroslav Starý, Pedro Sousa, Vanessa Mata, Luis da Silva, Joana Paupério, Pedro Beja
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Ferreira S, Oosterbroek P, Starý J, Sousa P, Mata VA, da Silva LP, Paupério J, Beja P (2021) The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae. Biodiversity Data Journal 9: e69841. https://doi.org/10.3897/BDJ.9.e69841
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The InBIO Barcoding Initiative (IBI) Diptera 02 dataset contains records of 412 crane fly specimens belonging to the Diptera families: Limoniidae, Pediciidae and Tipulidae. This dataset is the second release by IBI on Diptera and it greatly increases the knowledge on the DNA barcodes and distribution of crane flies from Portugal. All specimens were collected in Portugal, including six specimens from the Azores and Madeira archipelagos. Sampling took place from 2003 to 2019. Specimens have been morphologically identified to species level by taxonomists and belong to 83 species in total. The species, represented in this dataset, correspond to about 55% of all the crane fly species known from Portugal and 22% of crane fly species known from the Iberian Peninsula. All DNA extractions and most specimens are deposited in the IBI collection at CIBIO, Research Center in Biodiversity and Genetic Resources.
Fifty-three species were new additions to the Barcode of Life Data System (BOLD), with another 18 species' barcodes added from under-represented species in BOLD. Furthermore, the submitted sequences were found to cluster in 88 BINs, 54 of which were new to BOLD. All specimens have their DNA barcodes publicly accessible through BOLD online database and its collection data can be accessed through the Global Biodiversity Information Facility (GBIF). One species, Gonomyia tenella (Limoniidae), is recorded for the first time from Portugal, raising the number of crane flies recorded in the country to 145 species.
Diptera, Limoniidae, Pediciidae, Tipulidae, occurrence records, Portugal, DNA barcode, COI
Portugal is part of the Mediterranean hotspot of biodiversity, yet Portuguese biodiversity remains poorly studied and genetic data are scarcer still. To tackle this problem, the Research Network in Biodiversity and Evolutionary Biology (InBIO) created the InBIO Barcoding Initiative (IBI), making use of in-house High Throughput Sequencing knowledge to construct a reference collection of morphologically identified Portuguese specimens and corresponding DNA barcodes (
DNA barcoding is a molecular biology method for species identification that relies on the comparison of a short mitochondrial DNA sequence of interest to a library of sequences with known species identity (
The order Diptera is one of the most diverse, widespread and common of the holometabolic insects, having more than 158,000 described species (
In Portugal, the knowledge on Tipuloidea is still very incomplete. Of the four families that compose the Tipuloidea, only the Cylindrotomidae has not so far been recorded for the country, although it is known from Spain (
The IBI Diptera 02 dataset contains records of 412 specimens of crane flies collected in Portugal, all morphologically identified to species level, for a total of 83 species, two of which were further identified to subspecies level. This dataset is part of the ongoing IBI database public releases in both the Global Biodiversity Information Facility (GBIF) and the Barcode of Life Data System (BOLD) (e.g.
This dataset aims to provide the second contribution to a DNA barcode sequences library for Portuguese Diptera. It covers the three families of Tipuloidea known from Portugal. This library aims to advance DNA-based species identification from regular molecular studies and new DNA-metabarcoding studies. It presents also an important resource for taxonomic research on Portuguese crane flies and its distribution.
A total of 412 specimens of crane flies were collected and DNA barcoded (Suppl. materials
List of taxa that were collected and DNA barcoded within this project. In column Taxa: * - Indicates taxa without a DNA barcode prior to this study; '' - indicates taxa with less than 10 sequences available prior to this study.
Family (Subfamily) | Taxa | IBI code A | BOLD code | BOLD BIN | GenBank |
Limoniidae (Chioneinae) | Erioconopa diuturna (Walker, 1848) " | INV06209, INV08150 | IBIDP258-19, IBIDP446-19 | BOLD:ADZ3321 | MZ196613, MZ196520 |
Limoniidae (Chioneinae) | Erioptera fuscipennis Meigen, 1818 * | INV08142 | IBIDP438-19 | BOLD:AEC7071 | MZ196632 |
Limoniidae (Chioneinae) | Gonomyia tenella (Meigen, 1818) " | INV08655 | IBIDP644-20 | BOLD:ABV4194 | MZ196605 |
Limoniidae (Chioneinae) | Idiocera sziladyi (Lackschewitz, 1940) * | INV07222, INV07671, INV07679, INV08144, INV08393, INV08394, INV08395, INV08396 | IBIDP331-19, IBIDP338-19, IBIDP339-19, IBIDP440-19, IBIDP474-19, IBIDP475-19, IBIDP476-19, IBIDP477-19 | BOLD:AEC9216 | MZ196587, MZ196919, MZ196788, MZ196902, MZ196747, MZ196607, MZ196872, MZ196585 |
Limoniidae (Chioneinae) | Molophilus baezi Theowald, 1981 * | INV08355 | IBIDP450-19 | BOLD:AEC9561 | MZ196837 |
Limoniidae (Chioneinae) | Molophilus flavus Goetghebuer, 1920 " | INV06375 | IBIDP283-19 | BOLD:AEC9823 | MZ196640 |
Limoniidae (Chioneinae) | Molophilus testaceus Lackschewitz, 1940 * | INV10269 | IBIDP810-20 | BOLD:ABV9683 | MZ196639 |
Limoniidae (Chioneinae) | Symplecta hybrida (Meigen, 1804) | INV07037, INV08356 | IBIDP323-19, IBIDP451-19 | BOLD:AAZ4292 | MZ196555, MZ196715 |
Limoniidae (Chioneinae) | Symplecta pilipes (Fabricius, 1787) | INV06218, INV06499, INV06992, INV08153, INV08592, INV08597, INV08599, INV09687, INV09693, INV09695, INV09709, INV10185, INV10192, INV10310 | IBIDP260-19, IBIDP294-19, IBIDP321-19, IBIDP449-19, IBIDP636-20, IBIDP637-20, IBIDP639-20, IBIDP766-20, IBIDP767-20, IBIDP768-20, IBIDP769-20, IBIDP783-20, IBIDP785-20, IBIDP830-20 | BOLD:ACO3207 | MZ196843, MZ196778, MZ196859, MZ196685, MZ196601, MZ196804, MZ196593, MZ196776, MZ196833, MZ196539, MZ196525, MZ196787, MZ196858, MZ196908 |
Limoniidae (Chioneinae) | Symplecta stictica (Meigen, 1818) | INV06513, INV08125 | IBIDP297-19, IBIDP421-19 | BOLD:ADN4631 | MZ196807, MZ196840 |
Limoniidae (Dactylolabinae) | Dactylolabis sexmaculata (Macquart, 1826) * | INV04587 | IBIDP193-19 | BOLD:ADW0650 | MZ196744 |
Limoniidae (Limnophilinae) | Austrolimnophila analis (Santos Abreu, 1923) * | INV08357 | IBIDP452-19 | BOLD:AEC6671 | MZ196681 |
Limoniidae (Limnophilinae) | Austrolimnophila latistyla Starý, 1977 * | INV07797, INV08145, INV08440, INV08507, INV08531, INV08535, INV08538, INV08542, INV08549, INV08551, INV08554, INV08556, INV08557, INV08608, INV08661, INV08775, INV08817, INV09017, INV10347 | IBIDP415-19, IBIDP441-19, IBIDP594-20, IBIDP619-20, IBIDP622-20, IBIDP624-20, IBIDP625-20, IBIDP626-20, IBIDP628-20, IBIDP629-20, IBIDP630-20, IBIDP632-20, IBIDP633-20, IBIDP641-20, IBIDP645-20, IBIDP682-20, IBIDP690-20, IBIDP710-20, IBIDP845-20 | BOLD:AEC7677 | MZ196916, MZ196669, MZ196789, MZ196718, MZ196618, MZ196809, MZ196523, MZ196875, MZ196752, MZ196604, MZ196732, MZ196719, MZ196750, MZ196647, MZ196572, MZ196698, MZ196531, MZ196562, MZ196790 |
Limoniidae (Limnophilinae) | Dicranophragma nemorale (Meigen, 1818) * | INV06199, INV06201 | IBIDP256-19, IBIDP257-19 | BOLD:AEC9486 | MZ196708, MZ196735 |
Limoniidae (Limnophilinae) | Hexatoma nigra Latreille, 1809 * | INV06356, INV06477, INV06478, INV06479, INV09307 | IBIDP279-19, IBIDP285-19, IBIDP286-19, IBIDP287-19, IBIDP750-20 | BOLD:AEC8914 | MZ196712, MZ196815, MZ196814, MZ196563, MZ196799 |
Limoniidae (Limnophilinae) | Hexatoma obscura (Meigen, 1818) * | INV08133 | IBIDP429-19 | BOLD:AEC6596 | MZ196917 |
Limoniidae (Limnophilinae) | Paradelphomyia senilis (Haliday, 1833) " | INV08136 | IBIDP432-19 | BOLD:ADZ6740 | MZ196564 |
Limoniidae (Limnophilinae) | Euphylidorea aperta (Verrall, 1887) * | INV08529 | IBIDP621-20 | BOLD:AEE5475 | MZ196717 |
Limoniidae (Limnophilinae) | Phylidorea ferruginea (Meigen, 1818) | INV06899, INV08137, INV08651, INV08998, INV09310, INV10294 | IBIDP318-19, IBIDP433-19, IBIDP643-20, IBIDP707-20, IBIDP751-20, IBIDP819-20 | BOLD:ABW4832 | MZ196891, MZ196720, MZ196541, MZ196856, MZ196713, MZ196805 |
Limoniidae (Limnophilinae) | Pseudolimnophila ebullata Starý, 1982 * | INV07686, INV08122 | IBIDP340-19, IBIDP418-19 | BOLD:ABW9444 | MZ196734, MZ196583 |
Limoniidae (Limnophilinae) | Pseudolimnophila lucorum (Meigen, 1818) " | INV07149, INV07150, INV07162, INV07309, INV09780, INV10281 | IBIDP324-19, IBIDP325-19, IBIDP328-19, IBIDP333-19, IBIDP777-20, IBIDP816-20 | BOLD:ABA4227 | MZ196655, MZ196721, MZ196876, MZ196559, MZ196635, MZ196580 |
Limoniidae (Limoniinae) | Achyrolimonia decemmaculata (Loew, 1873) " | INV08126 | IBIDP422-19 | BOLD:ABU8822 | MZ196691 |
Limoniidae (Limoniinae) | Dicranomyia affinis (Staeger, 1840) " | INV08387, INV08388, INV08389, INV08390 | IBIDP366-19, IBIDP367-19, IBIDP368-19, IBIDP369-19 | BOLD:AEC8483 | MZ196877, MZ196751, MZ196808, MZ196561 |
Limoniidae (Limoniinae) | Dicranomyia chorea (Meigen, 1818) | INV08131 | IBIDP427-19 | BOLD:ABU9992 | MZ196706 |
Limoniidae (Limoniinae) | Dicranomyia didyma (Meigen, 1804) " | INV04553, INV04580, INV04591, INV04593, INV04661, INV06485, INV08015, INV08392, INV09304 | IBIDP191-19, IBIDP192-19, IBIDP194-19, IBIDP196-19, IBIDP215-19, IBIDP288-19, IBIDP416-19, IBIDP473-19, IBIDP748-20 | BOLD:ADX2241 | MZ196627, MZ196883, MZ196661, MZ196551, MZ196683, MZ196608, MZ196748, MZ196783, MZ196745 |
Limoniidae (Limoniinae) | Dicranomyia eulaliae Geiger & Starý, 1994 * | INV10336 | IBIDP839-20 | BOLD:AEE5290 | MZ196702 |
Limoniidae (Limoniinae) | Dicranomyia hamata Becker, 1908 * | INV04550, INV04592, INV08135 | IBIDP190-19, IBIDP195-19, IBIDP431-19 | BOLD:ADW6546 | MZ196736, MZ196576, MZ196652 |
Limoniidae (Limoniinae) | Dicranomyia longicollis (Macquart, 1846) * | INV08149, INV08391 | IBIDP445-19, IBIDP370-19 | BOLD:AEC9918 | MZ196909, MZ196631 |
Limoniidae (Limoniinae) | Dicranomyia maderensis (Wollaston, 1858) * | INV08359 | IBIDP454-19 | BOLD:AED0520 | MZ196841 |
Limoniidae (Limoniinae) | Dicranomyia modesta (Meigen, 1818) | INV07031, INV08130, INV08555, INV08582, INV09011, INV09013 | IBIDP322-19, IBIDP426-19, IBIDP631-20, IBIDP635-20, IBIDP708-20, IBIDP709-20 | BOLD:AAI1352 | MZ196599, MZ196769, MZ196664, MZ196558, MZ196621, MZ196714 |
Limoniidae (Limoniinae) | Dicranomyia novemmaculata (Strobl, 1906) * | INV08124 | IBIDP420-19 | BOLD:AEC9490 | MZ196578 |
Limoniidae (Limoniinae) | Dicranomyia patricia Starý, 1982 * | INV08129 | IBIDP425-19 | BOLD:AEC7553 | MZ196826 |
Limoniidae (Limoniinae) | Dicranomyia pauli Geiger, 1983 * | INV06870, INV06967, INV07596, INV07772, INV07809, INV09763, INV09764, INV09858, INV10264 | IBIDP408-19, IBIDP320-19, IBIDP337-19, IBIDP348-19, IBIDP414-19, IBIDP775-20, IBIDP776-20, IBIDP782-20, IBIDP809-20 | BOLD:AEC9051 | MZ196577, MZ196625, MZ196741, MZ196629, MZ196739, MZ196630, MZ196553, MZ196662, MZ196864 |
Limoniidae (Limoniinae) | Dicranomyia sericata (Meigen, 1830) * | INV08001, INV08140 | IBIDP350-19, IBIDP436-19 | BOLD:ACR3244 | MZ196537, MZ196913 |
Limoniidae (Limoniinae) | Dicranomyia vicina (Macquart, 1838) * | INV08360 | IBIDP455-19 | BOLD:AEC9533 | MZ196758 |
Limoniidae (Limoniinae) | Dicranoptycha fuscescens (Schummel, 1829) " | INV06696, INV06698, INV08007, INV08152, INV08500, INV08505, INV08606, INV08858, INV08917, INV08923, INV08927, INV08929, INV08933, INV08940, INV08944, INV08948, INV08951 | IBIDP309-19, IBIDP311-19, IBIDP355-19, IBIDP448-19, IBIDP614-20, IBIDP617-20, IBIDP640-20, IBIDP694-20, IBIDP697-20, IBIDP698-20, IBIDP699-20, IBIDP700-20, IBIDP701-20, IBIDP702-20, IBIDP703-20, IBIDP704-20, IBIDP706-20 | BOLD:ADZ3003 | MZ196545, MZ196836, MZ196673, MZ196549, MZ196824, MZ196690, MZ196692, MZ196663, MZ196526, MZ196803, MZ196865, MZ196737, MZ196733, MZ196862, MZ196660, MZ196651, MZ196674 |
Limoniidae (Limoniinae) | Geranomyia bivittata Becker, 1908 * | INV08362 | IBIDP457-19 | BOLD:AEC9740 | MZ196781 |
Limoniidae (Limoniinae) | Geranomyia unicolor Haliday, 1833 * | INV07561, INV07806 | IBIDP336-19, IBIDP347-19 | BOLD:AED0251 | MZ196884, MZ196762 |
Limoniidae (Limoniinae) | Helius calviensis Edwards, 1928 * | INV08123, INV08581 | IBIDP419-19, IBIDP634-20 | BOLD:AEC6944 | MZ196624, MZ196568 |
Limoniidae (Limoniinae) | Helius hispanicus Lackschewitz, 1928 * | INV08141, INV08687, INV08808, INV08809 | IBIDP437-19, IBIDP648-20, IBIDP849-20, IBIDP850-20 | BOLD:AEC9798 | MZ196677, MZ196592, MZ196772, MZ196586 |
Limoniidae (Limoniinae) | Limonia hercegovinae (Strobl, 1898) * | INV06357, INV06369, INV08132, INV09306, INV09721, INV09826, INV10280 | IBIDP280-19, IBIDP282-19, IBIDP428-19, IBIDP749-20, IBIDP770-20, IBIDP779-20, IBIDP815-20 | BOLD:AEC9714 | MZ196911, MZ196845, MZ196903, MZ196726, MZ196589, MZ196609, MZ196623 |
Limoniidae (Limoniinae) | Limonia maculipennis (Meigen & Wiedemann, 1818) * | INV06022, INV06181, INV06287 | IBIDP235-19, IBIDP251-19, IBIDP276-19 | BOLD:ADX7619 | MZ196823, MZ196860, MZ196835 |
Limoniidae (Limoniinae) | Limonia nubeculosa Meigen, 1804 | INV07774, INV07775, INV07776, INV08134, INV08430, INV08446, INV08488, INV08498, INV08503, INV08506, INV08534, INV08662, INV08698, INV08699, INV08705, INV08706, INV08707, INV08708, INV08770, INV08772, INV09038, INV09270, INV10295, INV10340 | IBIDP341-19, IBIDP342-19, IBIDP343-19, IBIDP430-19, IBIDP592-20, IBIDP599-20, IBIDP611-20, IBIDP613-20, IBIDP615-20, IBIDP618-20, IBIDP623-20, IBIDP646-20, IBIDP651-20, IBIDP652-20, IBIDP655-20, IBIDP656-20, IBIDP657-20, IBIDP658-20, IBIDP680-20, IBIDP681-20, IBIDP718-20, IBIDP737-20, IBIDP820-20, IBIDP841-20 | BOLD:AAG8508 | MZ196646, MZ196573, MZ196728, MZ196777, MZ196831, MZ196682, MZ196671, MZ196716, MZ196672, MZ196528, MZ196894, MZ196633, MZ196641, MZ196616, MZ196648, MZ196700, MZ196869, MZ196696, MZ196797, MZ196880, MZ196878, MZ196544, MZ196581, MZ196870 |
Limoniidae (Limoniinae) | Limonia phragmitidis (Schrank, 1781) | INV08441, INV08442, INV08452, INV08487, INV08738 | IBIDP595-20, IBIDP596-20, IBIDP600-20, IBIDP610-20, IBIDP665-20 | BOLD:ABV3744 | MZ196782, MZ196850, MZ196775, MZ196556, MZ196761 |
Limoniidae (Limoniinae) | Neolimonia dumetorum (Meigen, 1804) " | INV08127, INV08472, INV08483, INV08485, INV08509, INV08547, INV08663, INV08697, INV08701, INV09018, INV09034, INV10221 | IBIDP423-19, IBIDP605-20, IBIDP608-20, IBIDP609-20, IBIDP620-20, IBIDP627-20, IBIDP647-20, IBIDP650-20, IBIDP654-20, IBIDP711-20, IBIDP716-20, IBIDP792-20 | BOLD:ABV5347 | MZ196882, MZ196518, MZ196730, MZ196802, MZ196594, MZ196597, MZ196753, MZ196926, MZ196890, MZ196659, MZ196707, MZ196560 |
Pediciidae (Pediciinae) | Pedicia occulta (Meigen, 1830) | INV08003, INV08013 | IBIDP590-20, IBIDP591-20 | BOLD:AEE4508 | MZ196888, MZ196725 |
Pediciidae (Pediciinae) | Tricyphona immaculata (Meigen, 1804) | INV08154,INV09303 | IBIDP478-19, IBIDP747-20 | BOLD:ADZ1801 | MZ196759, MZ196524 |
Tipulidae (Ctenophorinae) | Ctenophora ornata Meigen & Wiedemann, 1818 * | INV05306, INV05449 | IBIDP219-19, IBIDP222-19 | BOLD:ADX2561 | MZ196521, MZ196570 |
Tipulidae (Dolichopezinae) | Dolichopeza albipes (Strom, 1768) " | INV00683 | IBIDP587-20 | BOLD:ACB7905 | MZ196554 |
Tipulidae (Tipulinae) | Nephrotoma appendiculata pertenua Oosterbroek, 1978 " | INV04605, INV04614, INV06007, INV06172, INV06173, INV06177, INV06178, INV06192, INV06193, INV06275, INV06282, INV09272 | IBIDP199-19, IBIDP208-19, IBIDP225-19, IBIDP246-19, IBIDP247-19, IBIDP248-19, IBIDP249-19, IBIDP254-19, IBIDP255-19, IBIDP267-19, IBIDP273-19, IBIDP738-20 | BOLD:ADX1669 | MZ196729, MZ196638, MZ196565, MZ196598, MZ196600, MZ196819, MZ196773, MZ196653, MZ196527, MZ196724, MZ196861, MZ196855 |
Tipulidae (Tipulinae) | Nephrotoma flavipalpis (Meigen, 1830) " | INV04862, INV05975, INV08700 | IBIDP217-19, IBIDP392-19, IBIDP653-20 | BOLD:ACZ3074 | MZ196770, MZ196606, MZ196571 |
Tipulidae (Tipulinae) | Nephrotoma guestfalica (Westhoff, 1879) * | INV07242, INV08005, INV08713 | IBIDP332-19, IBIDP353-19, IBIDP660-20 | BOLD:ADS9890 | MZ196857, MZ196821, MZ196895 |
Tipulidae (Tipulinae) | Nephrotoma luteata (Meigen, 1818) * | INV04296, INV04861, INV06546, INV09313, INV09314 | IBIDP186-19, IBIDP216-19, IBIDP301-19, IBIDP752-20, IBIDP753-20 | BOLD:ADW1410 | MZ196522, MZ196574, MZ196536, MZ196649, MZ196800 |
Tipulidae (Tipulinae) | Nephrotoma submaculosa Edwards, 1928 * | INV04526, INV04608, INV06006, INV06008, INV06009, INV06035, INV06171, INV06182, INV06272, INV08002, INV08379, INV08380, INV08480, INV08495, INV08504 | IBIDP187-19, IBIDP202-19, IBIDP224-19, IBIDP226-19, IBIDP227-19, IBIDP243-19, IBIDP245-19, IBIDP252-19, IBIDP264-19, IBIDP351-19, IBIDP363-19, IBIDP364-19, IBIDP607-20, IBIDP612-20, IBIDP616-20 | BOLD:AEC9536 | MZ196620, MZ196693, MZ196686, MZ196615, MZ196829, MZ196763, MZ196812, MZ196786, MZ196642, MZ196844, MZ196754, MZ196617, MZ196710, MZ196899, MZ196887 |
Tipulidae (Tipulinae) | Nephrotoma submaculosa Edwards, 1928 * | INV06021, INV06025, INV06170, INV06276 | IBIDP234-19, IBIDP238-19, IBIDP244-19, IBIDP268-19 | BOLD:ABW3498 | MZ196552, MZ196667, MZ196816, MZ196588 |
Tipulidae (Tipulinae) | Nephrotoma sullingtonensis Edwards, 1938 * | INV06270, INV06489, INV06497, INV09279, INV09295 | IBIDP262-19, IBIDP290-19, IBIDP292-19, IBIDP742-20, IBIDP851-20 | BOLD:ADX5268 | MZ196668, MZ196595, MZ196534, MZ196839, MZ196704 |
Tipulidae (Tipulinae) | Nephrotoma suturalis wulpiana (Bergroth, 1888) * | INV07541 | IBIDP335-19 | BOLD:ABZ0908 | MZ196922 |
Tipulidae (Tipulinae) | Tipula cava Riedel, 1913 * | INV06028, INV06030, INV09319, INV09320, INV09324 | IBIDP239-19, IBIDP241-19, IBIDP757-20, IBIDP758-20, IBIDP762-20 | BOLD:ADX7095 | MZ196722, MZ196928, MZ196853, MZ196866, MZ196792 |
Tipulidae (Tipulinae) | Tipula confusa van der Wulp, 1883 " | INV09075, INV09076, INV10230, INV10245, INV10274, INV10333, INV10337, INV10343, INV10344, INV10349 | IBIDP735-20, IBIDP736-20, IBIDP798-20, IBIDP803-20, IBIDP812-20, IBIDP838-20, IBIDP840-20, IBIDP843-20, IBIDP844-20, IBIDP846-20 | BOLD:ABV4653 | MZ196579, MZ196746, MZ196634, MZ196542, MZ196727, MZ196590, MZ196794, MZ196912, MZ196603, MZ196885 |
Tipulidae (Tipulinae) | Tipula fabiola Mannheims, 1968 * | INV08004, INV08764 | IBIDP352-19, IBIDP678-20 | BOLD:AEC9463 | MZ196873, MZ196723 |
Tipulidae (Tipulinae) | Tipula helvola Loew, 1873 * | INV08443 | IBIDP597-20 | BOLD:AAK1647 | MZ196636 |
Tipulidae (Tipulinae) | Tipula hispanolivida Mannheims, 1968 * | INV05330 | IBIDP220-19 | BOLD:ADW8816 | MZ196896 |
Tipulidae (Tipulinae) | Tipula iberica Mannheims, 1963 * | INV04609, INV06278, INV06358 | IBIDP203-19, IBIDP270-19, IBIDP281-19 | BOLD:ADX7515 | MZ196795, MZ196675, MZ196854 |
Tipulidae (Tipulinae) | Tipula intermedia Eiroa, 1990 * | INV09057, INV10229, INV10254, INV10255, INV10259, INV10270, INV10287, INV10297, INV10309, INV10313 | IBIDP732-20, IBIDP797-20, IBIDP805-20, IBIDP806-20, IBIDP808-20, IBIDP811-20, IBIDP818-20, IBIDP822-20, IBIDP829-20, IBIDP832-20 | BOLD:ABZ5659 | MZ196889, MZ196614, MZ196756, MZ196830, MZ196676, MZ196665, MZ196851, MZ196743, MZ196811, MZ196731 |
Tipulidae (Tipulinae) | Tipula lateralis Meigen, 1804 " | INV04630 | IBIDP212-19 | BOLD:ADK4356 | MZ196575 |
Tipulidae (Tipulinae) | Tipula lateralis Meigen, 1804 " | INV05431, INV09056, INV10278, INV10286, INV10296, INV10300, INV10303, INV10316 | IBIDP221-19, IBIDP731-20, IBIDP813-20, IBIDP817-20, IBIDP821-20, IBIDP824-20, IBIDP826-20, IBIDP834-20 | BOLD:ABZ5659 | MZ196678, MZ196897, MZ196904, MZ196801, MZ196550, MZ196847, MZ196567, MZ196879 |
Tipulidae (Tipulinae) | Tipula maxima Pode, 1761 " | INV05298, INV06522, INV06532 | IBIDP218-19, IBIDP299-19, IBIDP300-19 | BOLD:AAD6106 | MZ196923, MZ196622, MZ196687 |
Tipulidae (Tipulinae) | Tipula mediterranea Lackschewitz, 1830 * | INV04294, INV04613, INV04637, INV04660, INV06879, INV10187, INV10321 | IBIDP185-19, IBIDP207-19, IBIDP213-19, IBIDP214-19, IBIDP314-19, IBIDP784-20, IBIDP835-20 | BOLD:ADX2493 | MZ196832, MZ196548, MZ196628, MZ196612, MZ196842, MZ196779, MZ196738 |
Tipulidae (Tipulinae) | Tipula morenae Strob, 1900 * | INV06024, INV08010, INV08381 | IBIDP237-19, IBIDP358-19, IBIDP365-19 | BOLD:ADW6590 | MZ196596, MZ196768, MZ196774 |
Tipulidae (Tipulinae) | Tipula morenae Strob, 1900 * | INV06504, INV08014 | IBIDP296-19, IBIDP361-19 | BOLD:AEC7892 | MZ196626, MZ196680 |
Tipulidae (Tipulinae) | Tipula oleracea Linnaeus, 1758 | INV06514, INV06929, INV07536, INV08461, INV08720, INV08727, INV08728, INV08742, INV08743, INV08744, INV08745, INV08749, INV08787, INV08788, INV08791, INV08792, INV08795, INV08796, INV09032, INV09039, INV09043, INV09050, INV09051, INV09052, INV09053, INV09055, INV10209 | IBIDP298-19, IBIDP319-19, IBIDP334-19, IBIDP602-20, IBIDP661-20, IBIDP663-20, IBIDP664-20, IBIDP666-20, IBIDP667-20, IBIDP668-20, IBIDP669-20, IBIDP670-20, IBIDP684-20, IBIDP685-20, IBIDP686-20, IBIDP687-20, IBIDP688-20, IBIDP689-20, IBIDP715-20, IBIDP719-20, IBIDP722-20, IBIDP726-20, IBIDP727-20, IBIDP728-20, IBIDP729-20, IBIDP730-20, IBIDP786-20 | BOLD:AAF9041 | MZ196810, MZ196915, MZ196644, MZ196658, MZ196688, MZ196771, MZ196793, MZ196780, MZ196834, MZ196611, MZ196532, MZ196705, MZ196924, MZ196868, MZ196817, MZ196893, MZ196907, MZ196852, MZ196766, MZ196519, MZ196867, MZ196703, MZ196740, MZ196886, MZ196767, MZ196798, MZ196921 |
Tipulidae (Tipulinae) | Tipula paludosa (Meigen, 1830) " | INV06872, INV06885, INV06889, INV09761, INV10219, INV10223, INV10332, INV10341 | IBIDP313-19, IBIDP316-19, IBIDP317-19, IBIDP774-20, IBIDP790-20, IBIDP794-20, IBIDP837-20, IBIDP842-20 | BOLD:ADZ7173 | MZ196701, MZ196828, MZ196547, MZ196697, MZ196910, MZ196755, MZ196619, MZ196530 |
Tipulidae (Tipulinae) | Tipula parallela Theischinger, 1977 * | INV04544, INV04615, INV06011, INV06029, INV06033, INV06273, INV06274, INV06277, INV09019, INV09273, INV09282, INV09293 | IBIDP189-19, IBIDP209-19, IBIDP229-19, IBIDP240-19, IBIDP242-19, IBIDP265-19, IBIDP266-19, IBIDP269-19, IBIDP712-20, IBIDP739-20, IBIDP740-20, IBIDP741-20 | BOLD:ADV9772 | MZ196929, MZ196699, MZ196925, MZ196584, MZ196914, MZ196645, MZ196920, MZ196749, MZ196694, MZ196898, MZ196905, MZ196569 |
Tipulidae (Tipulinae) | Tipula pilicauda Pierre, 1922 * | INV06010, INV08012, INV08763 | IBIDP228-19, IBIDP360-19, IBIDP677-20 | BOLD:ADW9682 | MZ196918, MZ196757, MZ196760 |
Tipulidae (Tipulinae) | Tipula pseudocinerascens Strobl, 1906 * | INV04527, INV04600, INV04606, INV04607, INV04610, INV04611, INV04616 | IBIDP188-19, IBIDP197-19, IBIDP200-19, IBIDP201-19, IBIDP204-19, IBIDP205-19, IBIDP210-19 | BOLD:ADX3916 | MZ196871, MZ196742, MZ196863, MZ196881, MZ196849, MZ196813, MZ196695 |
Tipulidae (Tipulinae) | Tipula pustulata Pierre, 1920 * | INV08008 | IBIDP356-19 | BOLD:AEC8062 | MZ196900 |
Tipulidae (Tipulinae) | Tipula repanda Loew, 1864 * | INV06880, INV07163, INV07164, INV10210, INV10217, INV10218, INV10220, INV10224, INV10235, INV10251, INV10298 | IBIDP315-19, IBIDP329-19, IBIDP330-19, IBIDP787-20, IBIDP788-20, IBIDP789-20, IBIDP791-20, IBIDP795-20, IBIDP801-20, IBIDP804-20, IBIDP823-20 | BOLD:AEC7761 | MZ196591, MZ196892, MZ196689, MZ196709, MZ196822, MZ196657, MZ196874, MZ196543, MZ196838, MZ196901, MZ196827 |
Tipulidae (Tipulinae) | Tipula rufina Meigen, 1818 " | INV10228 | IBIDP796-20 | BOLD:ACR4602 | MZ196796 |
Tipulidae (Tipulinae) | Tipula intermixta Riedel, 1913 * | INV06863 | IBIDP312-19 | BOLD:AEC7837 | MZ196825 |
Tipulidae (Tipulinae) | Tipula serrulifera Alexander, 1962 * | INV09722 | IBIDP771-20 | BOLD:AEE5789 | MZ196765 |
Tipulidae (Tipulinae) | Tipula trifasciculata Strobl, 1900 * | INV06279, INV08000, INV08378 | IBIDP271-19, IBIDP349-19, IBIDP362-19 | BOLD:ADX0913 | MZ196557, MZ196906, MZ196670 |
Tipulidae (Tipulinae) | Tipula trigona Mannheims, 1966 * | INV08006, INV08009, INV08011, INV08438, INV08445, INV08460, INV08462, INV08463, INV08726, INV08755, INV08757, INV08758, INV08760, INV08761, INV09027, INV09047 | IBIDP354-19, IBIDP357-19, IBIDP359-19, IBIDP593-20, IBIDP598-20, IBIDP601-20, IBIDP603-20, IBIDP604-20, IBIDP662-20, IBIDP672-20, IBIDP673-20, IBIDP674-20, IBIDP675-20, IBIDP676-20, IBIDP714-20, IBIDP723-20 | BOLD:AEC7552 | MZ196610, MZ196538, MZ196806, MZ196927, MZ196529, MZ196566, MZ196684, MZ196764, MZ196656, MZ196643, MZ196818, MZ196533, MZ196791, MZ196546, MZ196582, MZ196820 |
Tipulidae (Tipulinae) | Tipula vernalis Meigen, 1804 " | INV06345, INV06347 | IBIDP277-19, IBIDP278-19 | BOLD:AAD2491 | MZ196540, MZ196666 |
Tipulidae (Tipulinae) | Tipula vittata Meigen, 1804 * | INV09301 | IBIDP745-20 | BOLD:AEE0656 | MZ196679 |
Tipulidae (Tipulinae) | Tipula yerburyi Edwards, 1924 * | INV09325 | IBIDP763-20 | BOLD:AEE8951 | MZ196848 |
Tipulidae (Tipulinae) | Tipula zarcoi Mannheims, 1967 * | INV04603, INV06020, INV06023, INV06269, INV06271, INV06280, INV06283, INV06284, INV08477 | IBIDP198-19, IBIDP233-19, IBIDP236-19, IBIDP261-19, IBIDP263-19, IBIDP272-19, IBIDP274-19, IBIDP275-19, IBIDP606-20 | BOLD:ADX0912 | MZ196784, MZ196654, MZ196846, MZ196711, MZ196637, MZ196785, MZ196602, MZ196535, MZ196650 |
Examples of the diversity of species that are part of the dataset of distribution data and DNA barcodes of Portuguese Diptera 02. All photos by Rui Andrade.
The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae
Pedro Beja (project coordinator), Sónia Ferreira (taxonomist and IBI manager), Joana Paupério (IBI manager), Pedro Sousa (project technician), Vanessa Mata (contributor) and Luis P da Silva (contributor), all affiliated to CIBIO-InBIO; Pjotr Oosterbroek (taxonomist), affiliated to Naturalis and Jaroslav Starý (taxonomist), affiliated to Olomouc-Nedvězí & Silesian Museum.
Tipuloidea specimens were collected in the field, morphologically identified and DNA barcoded.
This project was funded by European Union’s Horizon 2020 Research and Innovation Programme under grant agreement No 668981 and by project PORBIOTA - Portuguese E-Infrastructure for Information and Research on Biodiversity (POCI-01-0145-FEDER-022127), supported by Operational Thematic Program for Competitiveness and Internationalization (POCI), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (FEDER). The fieldwork benefited from EDP Biodiversity Chair, the project “Promoção dos serviços de ecossistemas no Parque Natural Regional do Vale do Tua: Controlo de Pragas Agrícolas e Florestais por Morcegos”, funded by the Agência de Desenvolvimento Regional do Vale do Tua and includes research conducted at the Long Term Research Site of Baixo Sabor (LTER_EU_PT_002). LPdS and SF were supported by individual research contracts (CEECIND/02064/2017, 2020.03526.CEECIND), funded by FCT. The work of JS was funded by the Ministry of Culture of the Czech Republic through institutional financing of long-term conceptual development of the Silesian Museum Research Institution (MK000100595).
Portugal, including the Autonomous Regions of the Azores and of Madeira.
The studied material was collected in 83 different localities from Portugal, 77 from continental Portugal and six from the Autonomous Regions of the Azores and of Madeira. The Bragança District was the most heavily sampled (21% of total specimens) and where most species were recorded, with almost half of the species (41%) in the dataset found there (Fig.
Number of specimens and species collected per Portuguese District or Autonomous Region and corresponding percentage.
District or Region | Specimens (n) | Specimens (%) | Taxa (n) | Taxa (%) |
Bragança | 88 | 21.4 | 35 | 42.2 |
Faro | 41 | 10.0 | 29 | 34.9 |
Castelo Branco | 38 | 9.2 | 19 | 22.9 |
Porto | 35 | 8.5 | 15 | 18.1 |
Vila Real | 33 | 8.0 | 14 | 16.9 |
Guarda | 32 | 7.8 | 20 | 24.1 |
Setúbal | 27 | 6.6 | 10 | 12.0 |
Santarém | 23 | 5.6 | 11 | 13.3 |
Beja | 20 | 4.9 | 9 | 10.8 |
Leiria | 17 | 4.1 | 9 | 10.8 |
Coimbra | 16 | 3.9 | 9 | 10.8 |
Lisboa | 16 | 3.9 | 5 | 6.0 |
Viana do Castelo | 12 | 2.9 | 7 | 8.4 |
Aveiro | 7 | 1.7 | 4 | 4.8 |
Madeira | 5 | 1.2 | 5 | 6.0 |
Azores | 1 | 0.2 | 1 | 1.2 |
No data | 1 | 0.2 | 1 | 1.2 |
TOTAL | 412 | 83 |
DNA extraction and sequencing followed the general pipeline in use by the IBI. Genomic DNA was extracted from leg tissue using the EasySpin Genomic DNA Tissue Kit (Citomed) according to the manufacturer’s protocol. The cytochrome c oxidase I (COI) barcoding fragment was then amplified as two overlapping fragments (LC and BH), using two sets of primers: LCO1490 (
All DNA barcodes sequences were compared against the BOLD database and the top 99 hits were inspected to detect possible problems arising from contaminations or misidentifications. The data were checked for errors and inconsistencies with OpenRefine 3.4 (http://openrefine.org) before submission to GBIF.
Continental Portugal, Autonomous Regions of the Azores and of Madeira.
32.65 and 41.97 Latitude; -25.51 and -6.34 Longitude.
The dataset is composed of data relating to 412 specimens of Diptera, all from the Tipuloidea superfamily. All specimens were morphologically identified to species or subspecies level by Pjotr Oosterbroek and/or Jaroslav Starý, except for seven specimens identified using the BOLD Identification Engine. In total, 83 species and two subspecies are represented in the dataset. These species belong to three families, Limoniidae, Pediciidae and Tipulidae. Limoniidae and Tipulidae account for similar numbers of collected specimens, 197 (48%) and 211 (51%) (Fig.
Rank | Scientific Name |
---|---|
kingdom | Animalia |
phylum | Arthropoda |
class | Insecta |
order | Diptera |
superfamily | Tipuloidea |
family | Limoniidae |
family | Pediciidae |
family | Tipulidae |
subfamily | Chioneinae |
subfamily | Ctenophorinae |
subfamily | Dactylolabinae |
subfamily | Dolichopezinae |
subfamily | Limnophilinae |
subfamily | Limoniinae |
subfamily | Pediciinae |
subfamily | Tipulinae |
The sampled material was collected in the period from 8 September 2003 to 14 October 2019.
Creative Commons Attribution 4.0 International (CC BY 4.0)
The InBIO Barcoding Initiative Database: DNA barcodes of Portuguese Diptera 02 - Limoniidae, Pediciidae and Tipulidae dataset can be downloaded from the Public Data Portal of BOLD (dx.doi.org/10.5883/DS-IBIDP02) in different formats (data as dwc, xml or tsv and sequences as fasta files). BOLD users can also log-in and access the dataset through the Workbench platform of BOLD. All records are also discoverable within BOLD, using the platform search function.
The InBIO Barcoding Initiative will continue to sequence crane flies and other Diptera for the BOLD database, with the ultimate objective of achieving a comprehensive coverage of the Portuguese fauna. The version of the dataset, at the time of writing the manuscript, is included as Suppl. materials
The BOLD database is not completely compliant with the Darwin Core Standard (DCS) format and, as such, the Darwin Core formatted file (dwc) downloaded from the BOLD platform is not strictly DCS formatted. For a correctly DCS formatted file, see http://ipt.gbif.pt/ipt/resource?r=ibi_diptera_02&v=1.6 (Suppl. material
Column labels below follow the labels downloaded in the tsv file downloaded from BOLD. Columns with no content in our dataset are left out in the list below.
Column label | Column description |
---|---|
processid | Unique identifier for the sample |
sampleid | Identifier for the sample being sequenced, i.e. IBI catalogue number at Cibio-InBIO, Porto University. Often identical to the "Field ID" or "Museum ID" |
recordID | Identifier for specimen assigned in the field |
catalognum | Catalogue number |
fieldnum | Field number |
institution_storing | The full name of the institution that has physical possession of the voucher specimen |
bin_uri | Barcode Index Number system identifier |
phylum_taxID | Phylum taxonomic numeric code |
phylum_name | Phylum name |
class_taxID | Class taxonomic numeric code |
class_name | Class name |
order_taxID | Order taxonomic numeric code |
order_name | Order name |
family_taxID | Family taxonomic numeric code |
family_name | Family name |
subfamily_taxID | Subfamily taxonomic numeric code |
subfamily_name | Subfamily name |
genus_taxID | Genus taxonomic numeric code |
genus_name | Genus name |
species_taxID | Species taxonomic numeric code |
species_name | Species name |
subspecies_taxID | Subspecies taxonomic numeric code |
subspecies_name | Subspecies name |
identification_provided_by | Full name of primary individual who assigned the specimen to a taxonomic group |
identification_method | The method used to identify the specimen |
voucher_status | Status of the specimen in an accessioning process (BOLD controlled vocabulary) |
tissue_type | A brief description of the type of tissue or material analysed |
collectors | The full or abbreviated names of the individuals or team responsible for collecting the sample in the field |
lifestage | The age class or life stage of the specimen at the time of sampling |
sex | The sex of the specimen |
lat | The geographical latitude (in decimal degrees) of the geographic centre of a location |
lon | The geographical longitude (in decimal degrees) of the geographic centre of a location |
elev | Elevation of sampling site (in metres above sea level) |
country | The full, unabbreviated name of the country where the organism was collected |
province_state | The full, unabbreviated name of the Province ("Distrito" in Portugal) where the organism was collected |
region | The full, unabbreviated name of the Municipality ("Concelho" in Portugal) where the organism was collected |
exactsite | Additional name/text description regarding the exact location of the collection site relative to a geographic relevant landmark |
The authors are grateful to Herman de Jong for independently identifying key specimens of Nephrotoma submaculosa and Nephrotoma suturalis wulpiana. The InBIO Barcoding Initiative was funded by European Union’s Horizon 2020 Research and Innovation Programme under grant agreement No 668981 and by project PORBIOTA - Portuguese E-Infrastructure for Information and Research on Biodiversity (POCI-01-0145-FEDER-022127), supported by Operational Thematic Program for Competitiveness and Internationalization (POCI), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (FEDER). The fieldwork benefited from EDP Biodiversity Chair, the project “Promoção dos serviços de ecossistemas no Parque Natural Regional do Vale do Tua: Controlo de Pragas Agrícolas e Florestais por Morcegos”, funded by the Agência de Desenvolvimento Regional do Vale do Tua and includes research conducted at the Long Term Research Site of Baixo Sabor (LTER_EU_PT_002). LPdS and SF were supported by individual research contracts (CEECIND/02064/2017, 2020.03526.CEECIND) funded by FCT. The work of JS was funded by the Ministry of Culture of the Czech Republic through institutional financing of long-term conceptual development of the Silesian Museum Research Institution (MK000100595).
The file includes information about all records in BOLD for the IBI - Diptera 02 library. It contains collecting and identification data. The data are as downloaded from BOLD in the tsv format, without further processing.
The file includes information about all records in GBIF for the IBI - Diptera 02 library. It contains collecting and identification data. The data are as downloaded from GBIF, without further processing.
COI sequences in fasta format. Each sequence is identified by the BOLD ProcessID, species name, genetic marker name and GenBank accession number, all separated by a vertical bar. The data are as downloaded from BOLD.