scholarly journals Validation of an Effective Protocol for Culicoides Latreille (Diptera: Ceratopogonidae) Detection Using eDNA Metabarcoding

Insects ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 401
Author(s):  
Yoamel Milián-García ◽  
Lauren A. A. Janke ◽  
Robert G. Young ◽  
Aruna Ambagala ◽  
Robert H. Hanner

eDNA metabarcoding is an effective molecular-based identification method for the biosurveillance of flighted insects. An eDNA surveillance approach maintains specimens for secondary morphological identification useful for regulatory applications. This study identified Culicoides species using eDNA metabarcoding and compared these results to morphological identifications of trapped specimens. Insects were collected using ultraviolet (UV) lighted fan traps containing a saturated salt (NaCl) solution from two locations in Guelph, Ontario, Canada. There were forty-two Culicoides specimens collected in total. Molecular identification detected four species, C. biguttatus, C. stellifer, C. obsoletus, and C. mulrennani. Using morphological identification, two out of these four taxonomic ranks were confirmed at the species level (C. biguttatus and C. stellifer) and one was confirmed at the subgenus level (Avaritia [C. obsoletus]). No molecular detection of Culicoides species occurred in traps with an abundance of less than three individuals per taxon. The inconsistency in identifying Culicoides specimens to the species level punctuates the need for curated DNA reference libraries for Culicoides. In conclusion, the saturated salt (NaCl) solution preserved the Culicoides’ morphological characteristics and the eDNA.

2018 ◽  
Vol 53 (2) ◽  
pp. 157 ◽  
Author(s):  
María J. Ochoa-Muñoz ◽  
Noé Díaz-Viloria ◽  
Laura Sánchez-Velasco ◽  
Sylvia P. A. Jiménez-Rosenberg ◽  
Ricardo Pérez-Enríquez

The larvae of the Auxis genus are abundant in the Gulf of California during summer; however, their identification to the species level by morphological methods is a challenge. The goal of this study was to identify A. thazard and A. rochei larvae for first time, through molecular markers using COI sequences of mtDNA, and look for distinctive morphological characteristics between species, mainly in pigmentation patterns. Larvae were obtained by zooplankton tows in 3 oceanographic cruises in the southern Gulf of California and adjacent waters. The presence of A. thazard and A. rochei larvae was genetically confirmed. The sequences of 7 larvae showed genetic divergences lower than 1% when were compared to sequences of A. thazard adults, while 15 larvae showed genetic divergences lower than 2% when where compared to sequences of A. rochei adults. Genetic divergences between both Auxis species were higher than 2%. These results suggest the spawning of both species in the Gulf of California. On the other hand, pigmentation patterns and morphometric characteristics, in all larval stages, did not permit the secure differentiation between species. Thus, the use of molecular identification by COI is recommended to identify Auxis larvae to the species level, as well as in other marine fish larvae collected in other regions of the world, that have identification troubles.


2018 ◽  
Vol 2018 ◽  
pp. 1-9
Author(s):  
Ji Hye Park ◽  
Sang Eon Shin ◽  
Kwang Soo Ko ◽  
Seong Hwan Park

Estimation of postmortem interval (PMI) is paramount in modern forensic investigation. After the disappearance of the early postmortem phenomena conventionally used to estimate PMI, entomologic evidence provides important indicators for PMI estimation. The age of the oldest fly larvae or pupae can be estimated to pinpoint the time of oviposition, which is considered the minimum PMI (PMImin). The development rate of insects is usually temperature dependent and species specific. Therefore, species identification is mandatory for PMImin estimation using entomological evidence. The classical morphological identification method cannot be applied when specimens are damaged or have not yet matured. To overcome this limitation, some investigators employ molecular identification using mitochondrial cytochrome c oxidase subunit I (COI) nucleotide sequences. The molecular identification method commonly uses Sanger’s nucleotide sequencing and molecular phylogeny, which are complex and time consuming and constitute another obstacle for forensic investigators. In this study, instead of using conventional Sanger’s nucleotide sequencing, single-nucleotide polymorphisms (SNPs) in the COI gene region, which are unique between fly species, were selected and targeted for single-base extension (SBE) technology. These SNPs were genotyped using a SNaPshot® kit. Eleven Calliphoridae and seven Sarcophagidae species were covered. To validate this genotyping, fly DNA samples (103 adults, 84 larvae, and 4 pupae) previously confirmed by DNA barcoding were used. This method worked quickly with minimal DNA, providing a potential alternative to conventional DNA barcoding. Consisting of only a few simple electropherogram peaks, the results were more straightforward compared with those of the conventional DNA barcoding produced by Sanger’s nucleotide sequencing.


2020 ◽  
Vol 21 (6) ◽  
Author(s):  
Ani Widiastuti ◽  
Monica Lucky Karlina ◽  
Kurnia Ritma Dhanti ◽  
Yufita Dwi Chinta ◽  
Tri Joko ◽  
...  

Abstract. Widiastuti A, Karlina ML, Dhanti KR, Chinta YD, Joko T, Suryanti, Wibowo A. 2020. Morphological and molecular identification of Fusarium spp. isolated from maize kernels in Java and Lombok, Indonesia. Biodiversitas 21: 2741-2750. Fungal contamination of maize is a serious problem in Indonesia. Fusarium spp. infect maize in the field will be continuing to contaminate in the post-harvest period even though disease symptoms are not always emerged. Some Fusarium spp. produced mycotoxins which are harmful to human and animal health. Aims of this research were to reveal the presence of Fusarium spp. from both symptomatic and unsymptomatic maize, and to identify them based on morphological characteristics and molecular analysis. Samples of maize were collected from maize cultivation areas in East Java (EJ), Central Java (CJ), West Java (WJ), Yogyakarta Special Province (DIY), and Lombok, West Nusa Tenggara. Fusarium spp. were isolated in a single spore method and cultured in potato dextrose agar (PDA) medium for morphological identification of macro-and microconidia. Molecular identification was conducted by PCR assay using species-specific primers. Furthermore, unidentified species were analyzed by DNA sequence. This research found four species of mycotoxigenic Fusarium isolated from maize-based on molecular identification, which were Fusarium verticillioides (15 isolates), F. proliferatum (6 isolates), F. graminearum (1 isolate) and F. asiaticum (1 isolate). This research showed a novel report of F. asiaticum infection on maize kernel in Indonesia.


2014 ◽  
Vol 35 (2) ◽  
pp. 415-453 ◽  
Author(s):  
Magdalena Błażewicz-Paszkowycz ◽  
Robert M. Jennings ◽  
Karen Jeskulke ◽  
Saskia Brix

AbstractIn Tanaidacea morphological identification of male individuals to the species level is complicated by two factors: the presence of multiple male stages/instars confuse the assessment of sexual stage while strong sexual dimorphism within several families obscures the morphological affinities of undescribed males to described females. Males of Paratanaoidea are often morphologically quite different from females and have not been discovered for most genera so far, which has led to the assumption that some tanaidaceans might have parthenogenetic reproduction or simply have undeveloped secondary sex traits. As a part ofthe IceAGE project (Icelandic marine Animals: Genetics and Ecology), with the support of molecular methods, the first evidence for the existence of highly dimorphic (swimming) males in four families of the superfamily Paratanaoidea (Agathotanaidae, Cryptocopidae, Akanthophoreidae, and Typhlotanaidae) is presented. This study suggests that these males might be the next instars after juvenile or preparatory males, which are morphologically similar to females. It has been assumed that “juvenile” males with a restricted ability for swimming (e.g., undeveloped pleopods) have matured testes, are capable of reproduction, and mate with females nearby, while swimming males can mate with distant females. Our explanation of the dimorphism in Tanaidomorpha lies in the fact that males of some species (e.g.,Nototanais) retain the same lifestyle or niche as the females, so secondary traits improve their ability to guard females and successfully mate. Males of other species that have moved into a regime (niche) different than that of the female have acquired complex morphological changes (e.g.,Typhlotanais).


Insects ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 104
Author(s):  
Jennifer Pradelli ◽  
Fabiola Tuccia ◽  
Giorgia Giordani ◽  
Stefano Vanin

Diptera puparia may represent both in forensic and archaeo-funerary contexts the majority of the entomological evidence useful to reconstruct the peri and post-mortem events. Puparia identification is quite difficult due to the lack of identification keys and descriptions. In addition, external substances accumulated during the puparia permanence in the environment make the visualization of the few diagnostic characters difficult, resulting in a wrong identification. Six different techniques based on physical and chemical treatments have been tested for the removal of external substances from puparia to make identification at species level feasible. Furthermore, the effects of these methods on successful molecular analyses have also been tested as molecular identification is becoming an important tool to complement morphological identifications. The results of this study indicate that cleaning via warm water/soap, the sonication and treatment with a sodium hydroxide solution are the best methods to achieve a good quality of the samples.


2021 ◽  
Vol 6 (1) ◽  
pp. 36-44
Author(s):  
Muhammad Rifqi Hariri ◽  
Peniwidiyanti Peniwidiyanti ◽  
Arifin Surya Dwipa Irsyam ◽  
Rina Ratnasih Irwanto ◽  
Irfan Martiansyah ◽  
...  

Ficus spp. belongs to the tribe Ficeae in the Moraceae family. Many members of this genus have been collected and grown in Bogor Botanic Gardens. There are 519 living collections of Ficus conserved since 1817, and 13 of them have not been identified until the species level. This research aimed to identify the Ficus sp. originated from Kaur Selatan (Bengkulu) using morphological and molecular approaches. Morphological characterization and herbarium specimen observation have been carried out to identify the Ficus sp. The molecular approach was conducted through DNA barcoding using ITS primer. The molecular identification using ITS sequence showed that Ficus sp. is Ficus crassiramea with 99.87% similarity to the sequence in NCBI. Morphological observation through herbarium specimen showed that there are 9 vegetative characters specific to Ficus crassiramea.


Plant Disease ◽  
2021 ◽  
Author(s):  
Jiahao Lai ◽  
Guihong Xiong ◽  
Bing Liu ◽  
Weigang Kuang ◽  
Shuilin Song

Blueberry (Vaccinium virgatum), an economically important small fruit crop, is characterized by its highly nutritive compounds and high content and wide diversity of bioactive compounds (Miller et al. 2019). In September 2020, an unknown leaf blight disease was observed on Rabbiteye blueberry at the Agricultural Science and Technology Park of Jiangxi Agricultural University in Nanchang, China (28°45'51"N, 115°50'52"E). Disease surveys were conducted at that time, the results showed that disease incidence was 90% from a sampled population of 100 plants in the field, and this disease had not been found at other cultivation fields in Nanchang. Leaf blight disease on blueberry caused the leaves to shrivel and curl, or even fall off, which hindered floral bud development and subsequent yield potential. Symptoms of the disease initially appeared as irregular brown spots (1 to 7 mm in diameter) on the leaves, subsequently coalescing to form large irregular taupe lesions (4 to 15 mm in diameter) which became curly. As the disease progressed, irregular grey-brown and blighted lesion ran throughout the leaf lamina from leaf tip to entire leaf sheath and finally caused dieback and even shoot blight. To identify the causal agent, 15 small pieces (5 mm2) of symptomatic leaves were excised from the junction of diseased and healthy tissue, surface-sterilized in 75% ethanol solution for 30 sec and 0.1% mercuric chloride solution for 2 min, rinsed three times with sterile distilled water, and then incubated on potato dextrose agar (PDA) at 28°C for 5-7 days in darkness. Five fungal isolates showing similar morphological characteristics were obtained as pure cultures by single-spore isolation. All fungal colonies on PDA were white with sparse creeping hyphae. Pycnidia were spherical, light brown, and produced numerous conidia. Conidia were 10.60 to 20.12 × 1.98 to 3.11 µm (average 15.27 × 2.52 µm, n = 100), fusiform, sickle-shaped, light brown, without septa. Based on morphological characteristics, the fungal isolates were suspected to be Coniella castaneicola (Cui 2015). To further confirm the identity of this putative pathogen, two representative isolates LGZ2 and LGZ3 were selected for molecular identification. The internal transcribed spacer region (ITS) and large subunit (LSU) were amplified and sequenced using primers ITS1/ITS4 (Peever et al. 2004) and LROR/LR7 (Castlebury and Rossman 2002). The sequences of ITS region (GenBank accession nos. MW672530 and MW856809) showed 100% identity with accessions numbers KF564280 (576/576 bp), MW208111 (544/544 bp), MW208112 (544/544 bp) of C. castaneicola. LSU gene sequences (GenBank accession nos. MW856810 to 11) was 99.85% (1324/1326 bp, 1329/1331 bp) identical to the sequences of C. castaneicola (KY473971, KR232683 to 84). Pathogenicity was tested on three blueberry varieties (‘Rabbiteye’, ‘Double Peak’ and ‘Pink Lemonade’), and four healthy young leaves of a potted blueberry of each variety with and without injury were inoculated with 20 μl suspension of prepared spores (106 conidia/mL) derived from 7-day-old cultures of LGZ2, respectively. In addition, four leaves of each variety with and without injury were sprayed with sterile distilled water as a control, respectively. The experiment was repeated three times, and all plants were incubated in a growth chamber (a 12h light and 12h dark period, 25°C, RH greater than 80%). After 4 days, all the inoculated leaves started showing disease symptoms (large irregular grey-brown lesions) as those observed in the field and there was no difference in severity recorded between the blueberry varieties, whereas the control leaves showed no symptoms. The fungus was reisolated from the inoculated leaves and confirmed as C. castaneicola by morphological and molecular identification, fulfilling Koch’s postulates. To our knowledge, this is the first report of C. castaneicola causing leaf blight on blueberries in China. The discovery of this new disease and the identification of the pathogen will provide useful information for developing effective control strategies, reducing economic losses in blueberry production, and promoting the development of the blueberry industry.


2020 ◽  
Vol 3 (2) ◽  
pp. 7-11
Author(s):  
A. Saidi ◽  
R. Mimouni ◽  
F. Hamadi ◽  
W. Oubrou

Monitoring of gastrointestinal nematode parasites in ruminants (domestic and wild) is often based on fecal examination techniques, looking for excreted eggs and larval forms using morphological keys. These, are more available in domestic ruminants, in which helminths are widely studied, than in wild ruminants.  This study tried to provide certain morphological elements that will help to recognize the L3 larvae of Camelostrongylus mentulatus and Nematodirus spathiger that could parasite either domestic or wild ruminants. For that, we resorted first to the culture of L3 larvae from fecal samples taken from African antelopes, and second by the microscopic characterization of each isolated larval morphological pattern previously identified by sequencing of its internal transcribed spacer (ITS-2) regions of the ribosomal DNA. The results of different microscopic captured images showed that Camelostrongylus mentulatus larva is 16 intestinal cells that measuring approximately 820 µm length, ‎≈ 25 µm wide, and ‎≈ 47 µm for its sheath tail extension and by this be closer to Teladorsagia circumcincta characteristics.  For Nematodirus spathiger, it possesses 8 gut cells and measuring about 1020 µm long, ‎≈ 25 µm wide, and‎ ≈ 143 µm for its sheath tail extension with specific tail appendages. Have done this, we were able to get some clarifications on the morphology of the studied larvae, and we believe thus that this study will contribute to the establishment of morphological identification keys especially for parasitic nematodes of wild ruminants.


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