scholarly journals Study of Lentinus squarrosulus from West Java on The Basis of Molecular and Morphological Data

Jurnal Biota ◽  
2020 ◽  
Vol 7 (1) ◽  
pp. 1-9
Author(s):  
Rudy Hermawan
Keyword(s):  
Phylogenetic Tree ◽  
Molecular Identification ◽  
Fruiting Body ◽  
Microscopic Observation ◽  
Its Region ◽  
First Record ◽  
Molecular Study ◽  
Morphological Data ◽  
West Java ◽  
Molecular Analyses

Lentinus is a unique genus within Polyporales, because of the lamellate basidiocarp. In Indonesia, Lentinus is commonly for a study about their potential, rarely for their taxonomy. BO 24427 specimen was found in West Java, Indonesia, sited in Landscape Arboretum of IPB University. The specimen was identified using molecular study and supported by some morphological data of fresh fruiting body. molecular identification used ITS region. The phylogenetic tree was constructed using MEGA Version X software. The morphology was based on macroscopic and microscopic observation. The result of molecular analyses showed that BO 24427 specimen was identified as Lentinus squarrosulus with 99% bootstrap value and classified into section Rigidi. The morphological data of fresh fruiting body supported the molecular identification. The important morphological data that classified into Lentinus squarrosulus were scabrous cap and size of basidiospores. This study was the first record for publish the finding of Lentinus squarrosulus in Indonesia.

scholarly journals Trichaleurina javanica from West Java

2020 ◽  
Vol 4 (2) ◽  
pp. 175
Author(s):  
Rudy Hermawan ◽  
Mega Putri Amelya ◽  
Za'Aziza Ridha Julia
Keyword(s):  
Phylogenetic Tree ◽  
Molecular Identification ◽  
Morphological Data ◽  
West Java ◽  
New Name ◽  
Molecular Phylogenetic Tree ◽  
Molecular Phylogenetic

Trichaleurina is a fleshy mushroom with goblet-shaped within Pezizales. Many genera have a morphology similar to Trichaleurina, such as Bulgaria and Galiella. Some previous reports had been described fungi like Trichaleurina as Sarcosoma. Indonesia has been reported that has Trichaleurina specimen (the new name of Sarcosoma) by Boedijn. This research aimed to obtain, characterize, and determine the Trichaleurina around IPB University. Field exploration for fungal samples was used in the Landscape Arboretum of IPB University. Ascomata of Trichaleurina were collected, observed, and preserved using FAA. The specimen was deposited into Herbarium Bogoriense with collection code BO 24420. The molecular phylogenetic tree using RAxML was used to identify the species of the specimen. Morphological data were used to support the species name of the specimen. Specimen BO 24420 was identified as Tricahleurina javanica with 81% bootstrap value. Molecular identification was supported by the morphological data, such as the two oil globules and the size of mature ascospores.

scholarly journals Xylaria sp.; The Candle Snuff Fungus from West Java

Jurnal Biota ◽  
2021 ◽  
Vol 7 (2) ◽  
pp. 77-84
Author(s):  
Rudy Hermawan ◽  
Yuyun Nisaul Khairillah
Keyword(s):  
Molecular Identification ◽  
Large Subunit ◽  
Morphological Data ◽  
West Java ◽  
Molecular Analyses

Candle snuff fungus belongs to Xylaria group. Generally, Xylaria has a form like stick or candle or elongated fruit of shapes. Xylaria is classified into Ascomycota within Xylariaceae. This study found one species of candle-shaped mushroom in IPB Unversity. This study aimed to identified and characterized the specimen using molecular and morphological data. The specimen was collected and preservedinto FAA solution and deposited into Herbarium Bogoriense as BO 24426. Molecular analyses using Large Subunit as a region for amplification showed that the BO 24426 was classified into Xylaria sp. This species closes to Xylaria consociata. The stromata were erected, unbranched, and tapered to the apex. The texture was rigid and hard. Ascus bore 8 ascospores. The ascospores were fusiform or bean-shaped and smooth. The morphological observations supported molecular identification of BO 24426 as Xylaria sp. Other genes were needed to ensure the exact species of Xylaria

scholarly journals WildTermitomycesSpecies Collected from Ondo and Ekiti States Are More Related to African Species as Revealed by ITS Region of rDNA

2012 ◽  
Vol 2012 ◽  
pp. 1-5 ◽  
Author(s):  
Victor Olusegun Oyetayo
Keyword(s):  
Sequence Analysis ◽  
Phylogenetic Tree ◽  
Molecular Identification ◽  
Internal Transcribed Spacer ◽  
Its Region ◽  
Its Sequence ◽  
African Countries ◽  
African Species ◽  
Its Sequence Analysis ◽  
Degree Of Similarity

Molecular identification of eighteenTermitomycesspecies collected from two states, Ondo and Ekiti in Nigeria was carried out using the internal transcribed spacer (ITS) region. The amplicons obtained from rDNA ofTermitomycesspecies were compared with existing sequences in the NCBI GenBank. The results of the ITS sequence analysis discriminated between all theTermitomycesspecies (obtained from Ondo and Ekiti States) andTermitomycessp. sequences obtained from NCBI GenBank. The degree of similarity of T1 to T18 to gene ofTermitomycessp. obtained from NCBI ranges between 82 and 99 percent.Termitomycesspecies from Garbon with ascension number AF321374 was the closest relative of T1 to T18 except T12 that has T. eurhizus and T. striatus as the closet relative. Phylogenetic tree generated with ITS sequences obtained from NCBI GenBank data revealed that T1 to T18 are more related toTermitomycesspecies indigenous to African countries such as Senegal, Congo, and Gabon.

scholarly journals Identification of the Pathogen Causing Stem Blight Disease on Chili in Sindangjaya Village, Cipanas, Cianjur, West Java Based on Morphological and Molecular Analyses

2021 ◽  
Vol 17 (1) ◽  
pp. 35
Author(s):  
Wartono Wartono
Keyword(s):  
Molecular Identification ◽  
Phytophthora Capsici ◽  
Economic Value ◽  
Morphological Characters ◽  
Stem Rot ◽  
West Java ◽  
Molecular Analyses ◽  
Molecular Approaches ◽  
Rot Disease ◽  
Blight Disease

<p>Chili (Capsicum annuum L.) is a vegetable commodity with high economic value which is widely cultivated by farmers in Indonesia. One of the obstacles faced in chili cultivation is stem rot disease. This study aimed to identify the pathogens that caused stem rot in chili plants obtained from one location in Sindangjaya Village, Cipanas District, Cianjur Regency, West Java Province based on morphological and molecular analyses. Pathogen identification was performed with morphological and molecular approaches. The morphological characters observed included colony shape, sporangium diameter, and mating type. The pathogenicity of the isolates was assayed by inoculating chili stems aged 40 days. Molecular identification was carried out using two pairs of primers for ITS regions and TEF-1 gene. Based on the results of morphological and molecular identification, as well as pathogenicity tests, it was confirmed that Phytophthora capsici pathogen was the causal agent of stem rot in chili plants collected from Sindangjaya Village. Further study is needed to determine the spread of the disease, damage, and yield loss caused by stem rot disease, as well as how to prevent and control the disease.</p>

Hygrocybe umbilicata sp. nov., with first generic report for Bangladesh and its phylogenetic placement

Phytotaxa ◽  
2016 ◽  
Vol 280 (1) ◽  
pp. 70 ◽  
Author(s):  
MD. IQBAL HOSEN ◽  
TAI-HUI LI ◽  
F. M. AMINUZZAMAN ◽  
MD. RAFIQUL ISLAM
Keyword(s):  
New Species ◽  
Internal Transcribed Spacer ◽  
Its Region ◽  
First Record ◽  
Morphological Data ◽  
Lemon Yellow ◽  
Molecular Evidence ◽  
Phylogenetic Placement

Hygrocybe umbilicata, a new waxcap of Hygrophoraceae, is formally described from Bangladesh based on morphological data and molecular evidence of the nuclear ribosomal internal transcribed spacer (ITS) region. This species represents the first record of the genus Hygrocybe for this country. It can be easily recognized by its brilliantly scarlet red with umbilicate pileus, lemon yellow stipe, white short decurrent and distant lamellae, subglobose basidiospores, and abundant clamp connections in tissues. This species belongs to genus Hygrocybe subg. Pseudohygrocybe sect. Coccineae subsect. Squamulosae. Detailed description, color photographs and illustrations of the new species are presented.

Origin of Rosa x binaloudensis (Rosaceae), a new natural hybrid species from Iran

Phytotaxa ◽  
2019 ◽  
Vol 411 (1) ◽  
pp. 23-38 ◽  
Author(s):  
JAMIL VAEZI ◽  
ALI ASGHAR ARJMANDI ◽  
HAMID REZA SHARGHI
Keyword(s):  
Phylogenetic Tree ◽  
Multivariate Analyses ◽  
Phylogenetic Reconstruction ◽  
Phylogenetic Network ◽  
Its Region ◽  
Haplotype Network ◽  
Molecular Study ◽  
Putative Hybrid ◽  
Mountainous Area ◽  
Natural Hybrid

Rosa x binaloudensis, a new natural hybrid between R. beggeriana and R. persica is described and characterized after analyzing a set of morphological and molecular data. The putative hybrid with a small population occurs in the mountainous area of northeastern Iran. This taxon resembles R. beggeriana in having white corolla and pinnately compound leaves but its petals have red blotch at the base of each more similar to R. persica. In the morphological study we performed both the univariate and multivariate analyses. Results of Mann-Whitney U test show that among 62 vegetative and floral morphological traits used, 37 (59%) of the hybrid characters are parental-like, 14 (23%) traits are intermediate and 11 (18%) appear to be transgressive (both new and extreme characters). Multivariate analyses (PCoA) generally show that the hybrid is intermediate between its putative parents. In the molecular study we amplified, cloned, and sequenced ribotypes (nuclear rDNA-ITS region) of the hybrid, its putative parents and all members of the subgenus Rosa to detect their possible involvement in the hybridization. In addition to phylogenetic tree reconstruction, due to low molecular resolution among the ITS ribotypes, a phylogenetic network was also provided. Both the phylogenetic tree and haplotype network analysis confirmed the occurrence of the hybridization between the proposed parental species, R. beggeriana and R. persica. By using the chloroplastic trnL-F sequences, our phylogenetic reconstruction revealed that R. persica has played as a maternal role in the hybridization.

A brief history of the classification and nomenclature of Odonata*

Zootaxa ◽  
2007 ◽  
Vol 1668 (1) ◽  
pp. 381-394 ◽  
Author(s):  
JOHN W.H. TRUEMAN
Keyword(s):  
Phylogenetic Tree ◽  
20Th Century ◽  
Morphological Data ◽  
Wing Vein ◽  
Natural Classification ◽  
Molecular Analyses ◽  
Insect Order ◽  
History Of ◽  
19Th And 20Th Century

The classification of insect order Odonata is traced from Linnaeus’ Systema Naturae, through 19th and 20th century morphology-based taxonomies, to molecular phylogenies published before November, 2007. Past and present nomenclatural difficulties are reviewed and the current situation in regard to rival taxonomies is outlined. Ordinal classifications based on morphological data continue to suffer from intractable uncertainty concerning wing vein homologies between Odonata and other Pterygota, but molecular analyses may soon show where the phylogenetic tree of Odonata should be rooted. The natural classification will become much clearer once this has been achieved.

First record of the soil cyanobacterium Nodosilinea epilithica (Synechococcales, Cyanobacteria) in Russia

2016 ◽  
Vol 50 ◽  
pp. 125-141
Author(s):  
A. D. Temraleeva ◽  
S. A. Dronova
Keyword(s):  
Chestnut Soil ◽  
First Record ◽  
Molecular Analyses ◽  
Dry Steppes ◽  
Cyanobacterial Culture ◽  
Volgograd Region ◽  
First Time

Nodosilinea epilithica Perkerson et Casamatta is reported for the first time for Russia. The sample was isolated from a typical chestnut soil in the zone of dry steppes (Volgograd Region) and its identity was confirmed by morphological and molecular analyses. The specific feature of the studied strain is its ability to form nodules at normal (60–75 μmol photons ∙ m-2 ∙ sec-1) light. The number of nodules is supposed to be related to the age of a cyanobacterial culture.

scholarly journals Combination of nuclear and mitochondrial markers as a useful tool to identify Ctenophthalmus species and subspecies (Siphonaptera: Ctenophthalmidae)

2021 ◽  
Author(s):  
Antonio Zurita ◽  
Cristina Cutillas
Keyword(s):  
Taxonomic Status ◽  
Molecular Study ◽  
Molecular Data ◽  
Point Of View ◽  
Morphological Data ◽  
Molecular Approach ◽  
Nuclear Marker ◽  
Mitochondrial Markers ◽  
Morphological Criteria ◽  
Mtdna Markers

AbstractCtenophthalmus is considered the largest genus within the Order Siphonaptera. From a morphological point of view, only males of this genus can be identified at species and subspecies levels using morphological keys, whereas there are no morphological criteria in order to classify females at these taxonomical levels. Furthermore, the amount of available molecular and phylogenetic data for this genus is quite scarce so far. The main objective of this work was to assess the utility of the combination of nuclear and mitochondrial markers with respect to their ability to differentiate among different subspecies within the Ctenophthalmus genus. With this purpose, we carried out a comparative morphological and molecular study of three different subspecies (Ctenophthalmus baeticus arvernus, Ctenophthalmus nobilis dobyi, and Ctenophthalmus andorrensis catalaniensis) in order to clarify and discuss its taxonomic status. In addition, our study complemented the molecular data previously provided for Ctenophthalmus baeticus boisseauorum and Ctenophthalmus apertus allani subspecies. We sequenced five different molecular markers: EF1-α, ITS1, ITS2, cox1, and cytb. Our results confirmed that morphological data by themselves are not able to discriminate among Ctenophthalmus female taxa; however, the combination of the nuclear marker EF1-α together with mtDNA markers cytb and cox1 constituted a useful taxonomical and phylogenetic tool to solve this issue. Based on these results, we consider that the use of this molecular approach should be gradually used within Ctenophthalmus genus in order to complement its classical taxonomy and clarifying the complex taxonomy of other congeneric species of fleas.

scholarly journals The First Record of Echinococcus ortleppi (G5) Tapeworms in Grey Wolf (Canis lupus)

Pathogens ◽  
2021 ◽  
Vol 10 (7) ◽  
pp. 853
Author(s):  
Jacek Karamon ◽  
Małgorzata Samorek-Pieróg ◽  
Jacek Sroka ◽  
Ewa Bilska-Zając ◽  
Joanna Dąbrowska ◽  
...  
Keyword(s):  
Small Intestine ◽  
Molecular Identification ◽  
Canis Lupus ◽  
Sequence Comparison ◽  
First Record ◽  
Grey Wolf ◽  
South Eastern ◽  
Counting Technique ◽  
Small Intestines ◽  
First Time

The aim of this study is to confirm the presence and molecular identification of Echinococcus tapeworms in wolves from south-eastern Poland. An investigation was carried out on the intestines of 13 wolves from south-eastern Poland. The small intestines were divided into three equal segments. Each segment was separately examined using the sedimentation and counting technique (SCT). The detected Echinococcus tapeworms were isolated and identified by PCRs and sequencing (nad1 and cox1 genes). Additionally, DNA isolated from the feces of wolves positive for Echinococcus tapeworms was examined with two diagnostic PCRs. The intestines of one wolf were positive for E. granulosus s.l. when assessed by SCT; the intestine was from a six-year-old male wolf killed in a communication accident. We detected 61 adult tapeworms: 42 in the anterior, 14 in the middle, and 5 in the posterior parts of the small intestine. The PCRs conducted for cox1 and nad1 produced specific products. A sequence comparison with the GenBank database showed similarity to the deposited E. ortleppi (G5) sequences. An analysis of the available phylogenetic sequences showed very little variation within the species of E. ortleppi (G5), and identity ranged from 99.10% to 100.00% in the case of cox1 and from 99.04 to 100.00% in the case of nad1. One of the two diagnostic PCRs used and performed on the feces of Echinococcus-positive animals showed product specific for E. granulosus. This study showed the presence of adult E. ortleppi tapeworms in wolves for the first time.

Sign in / Sign up

Export Citation Format

Share Document