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 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 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>

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 Puparia Cleaning Techniques for Forensic and Archaeo-Funerary Studies

Insects ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 104
Author(s):  
Jennifer Pradelli ◽  
Fabiola Tuccia ◽  
Giorgia Giordani ◽  
Stefano Vanin
Keyword(s):  
Sodium Hydroxide ◽  
Molecular Identification ◽  
Sodium Hydroxide Solution ◽  
Species Level ◽  
Post Mortem ◽  
Molecular Analyses ◽  
Chemical Treatments ◽  
Wrong Identification ◽  
Physical And Chemical

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.

Acrocordiella omanensis sp. nov. (Requienellaceae, Xylariales) from the Sultanate of Oman

Phytotaxa ◽  
2018 ◽  
Vol 338 (3) ◽  
pp. 294
Author(s):  
SAJEEWA S. N. MAHARACHCHIKUMBURA ◽  
KEVIN D. HYDE ◽  
REKHANI H. PERERA ◽  
ABDULLAH M. AL-SADI
Keyword(s):  
Ribosomal Dna ◽  
Internal Transcribed Spacer ◽  
Large Subunit ◽  
Nuclear Ribosomal Dna ◽  
Morphological Data ◽  
Sultanate Of Oman ◽  
Green Mountain ◽  
Al Jabal Al Akhdar ◽  
Internal Transcribed Spacer Sequences

Acrocordiella omanensis sp. nov. is described and illustrated from specimens on dead stem of Juniper sp. collected in Al Jabal al-Akhdar (Green Mountain), Sultanate of Oman. It strongly resembles Acrocordiella occulta, the type of the genus, in its similar asci and ascospore anatomy. It differs from A. occulta in having bell-shaped to cap-like clypeus around the ostiole and larger asci and ascospores. The combined large subunit nuclear ribosomal DNA and internal transcribed spacer sequences support the conclusions based on the morphological data.

Molecular variability of Schistonchus caprifici (Nematoda: Aphelenchoididae) from Ficus carica in Turkey

Nematology ◽  
2008 ◽  
Vol 10 (5) ◽  
pp. 639-649 ◽  
Author(s):  
Baris Gulcu ◽  
Selçuk Hazir ◽  
Robin M. Giblin-Davis ◽  
Weimin Ye ◽  
Natsumi Kanzaki ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Intraspecific Variation ◽  
Human Activities ◽  
Large Subunit ◽  
Ficus Carica ◽  
Lsu Rdna ◽  
Molecular Analyses ◽  
Molecular Variability ◽  
Geographic Patterns ◽  
Fig Trees

Abstract An extensive biogeographical survey was conducted from 2004 through part of 2007 of nematodes associated with the edible fig, Ficus carica, in seven different regions of Turkey. Figs (syconia) were collected, dissected and harvested for nematodes from 308 apparently wild or naturalised F. carica trees along roadsides and trails. Nematode specimens were examined morphologically and molecular analyses of sequences of the D2/D3 expansion segments of the large subunit (LSU) rDNA and partial mitochondrial DNA COI (mtCOI) were done. Of the 308 fig trees, 150 (49%) were positive for what was morphologically confirmed to be Schistonchus caprifici. Figs on one tree in Kahramanmaras city, South East Turkey, were found to contain S. caprifici and dauer juveniles of what appears to be a diplogastrid nematode. Molecular analyses produced congruent trees for both sequenced loci supporting the hypothesis that S. caprifici from different locations in Turkey are part of a well supported clade with some inherent variability. No geographic patterns were observed for either locus suggesting that the sequences generated represent inherent intraspecific variation for S. caprifici and that human activities related to the culture of the edible fig have allowed for mixing of any previously allopatric lineages.

scholarly journals Molecular evidence and marine snake origins

2005 ◽  
Vol 1 (2) ◽  
pp. 227-230 ◽  
Author(s):  
Michael S.Y Lee
Keyword(s):  
Molecular Phylogeny ◽  
Nuclear Gene ◽  
Molecular Data ◽  
Morphological Data ◽  
Molecular Evidence ◽  
Gene Sequences ◽  
Molecular Analyses ◽  
Marine Origin ◽  
Molecular Tree

A molecular phylogeny was used to refute the marine scenario for snake origins. Nuclear gene sequences suggested that snakes are not closely related to living varanid lizards, thus also apparently contradicting proposed relationships between snakes and marine mosasaurs (usually considered to be varanoids). However, mosasaurs share derived similarities with both snakes and living varanids. A reanalysis of the morphological data suggests that, if the relationships between living taxa are constrained to the proposed molecular tree, with fossil forms allowed to insert in their optimal positions within this framework, mosasaurs cluster with snakes rather than with varanids. Combined morphological and molecular analyses also still unite marine lizards with snakes. Thus, the molecular data do not refute the phylogenetic evidence for a marine origin of snakes.

Characterisation of the Australian Nacophorini using adult morphology, and phylogeny of the Geometridae based on morphological characters

Zootaxa ◽  
2008 ◽  
Vol 1736 (1) ◽  
pp. 1 ◽  
Author(s):  
CATHERINE J. YOUNG
Keyword(s):  
Phylogenetic Analysis ◽  
Majority Rule ◽  
Morphological Character ◽  
Morphological Characters ◽  
Data Sources ◽  
Morphological Data ◽  
Bootstrap Support ◽  
Consensus Tree ◽  
Molecular Analyses ◽  
Character Set

The Australian Nacophorini and related taxa are described using a matrix of 116 adult morphological characters. Adults of 72 species are illustrated using photographs and electron micrographs. Subsets of the characters are used to conduct a phylogenetic analysis based on cladistic principles. The adult morphological character set was augmented with 17 characters from eggs and 27 from larvae. The resulting phylogeny is poorly resolved but provides support for many of the relationships recovered by previous molecular analyses of the group, including basal derivations for characters of Larentiinae and Sterrhinae relative to those of the rest of Geometridae, and the monophyly of the Geometrinae + Oenochrominae s. str. Combining 28S D2 datawith morphological data produced a matrix of 60 taxa and 590 characters. The majority rule consensus tree produced by the combined morphological and 28S D2 data is almost identical to the majority rule consensus tree produced by the 28S D2 data alone, except that bootstrap support is lower for most nodes. Common clades obtained from the molecular and morphological trees are described in terms of morphological data. On this basis a concept of the Australian Nacophorini includes Lithinini and Australian Archiearinae. Two robust groups within the tribe also are delimited using characters from all data sources. Comparsions are made between the Nearctic and Neotropical Nacophorini on the basis of shared morphological characters. Australian Boarmiini are defined by synapomorphies.

A new record of Tricholoma caligatum (Tricholomataceae) from North Africa with a discussion of related species

Phytotaxa ◽  
2016 ◽  
Vol 282 (2) ◽  
pp. 119
Author(s):  
MOUNIA BENAZZA-BOUREGBA ◽  
JEAN-MICHEL SAVOIE ◽  
ZOHRA FORTAS ◽  
CHRISTOPHE BILLETTE
Keyword(s):  
Molecular Markers ◽  
North Africa ◽  
New Record ◽  
Morphological Traits ◽  
Mixed Forest ◽  
Morphological Data ◽  
North African ◽  
Mediterranean Species ◽  
Molecular Analyses ◽  
The North

Among the Basidiomycota, matsutake are the most appreciated mushrooms in Japan. Some Tricholoma species belonging to matsutake group are exported from North Africa to Japan. Until the beginning of the 21st century, the North African ‘matsutake’ was identified as T. caligatum, which is a circum-Mediterranean species described in 1834. However, recent molecular analyses uncover some North African isolates as T. anatolicum, which is a species described from Turkey in 2003. As a result, the presence of T. caligatum in North Africa remained to be confirmed. We analyzed a recent specimen collected in Algeria from mixed forest and based on molecular and morphological data, we found that it belongs to T. caligatum, indicating the existence of two species in North Africa. Morphological traits and molecular markers are proposed here to easily distinguish these two species from each other. The concept of both the species and their respective geographic distributions are discussed.

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