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Started by:
Alex Brown

The coumarin (benzopyran-2-one, or chromen-2-one) ring system, present in natural products such as tonka beans, warfarin, and clover leaf, displays interesting pharmacological properties. The parent molecule was first isolated by Vogel from tonka beans. The coumarin ring can be looked upon as arising out of a fusion of a pyrone ring with a benzene nucleus. The derivatives of coumarin usually occur as secondary metabolites present in seeds, roots, and leaves of many plant species. More than 300 coumarins have been identified from natural sources, especially from green plants. These varying substances have disparate pharmacological, biochemical, and therapeutic applications. As for physical properties, coumarin is a white crystalline, volatile compound. It smells like vanilla and has a melting point of 341-344 K. https://www.bocsci.com/tag/coumarins-535.html
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Started by:
Alex Brown

SARS-CoV-2 is a positive-sense single-stranded RNA virus (+ssRNA) with round or elliptical particles, a diameter of about 80 to 120 nm, and about 30,000 nucleotides long. Like other HCoVs, SARS-CoV-2 has four major structural protein, including S (spike), E (envelope), M (membrane), and N (nucleocapsid) proteins. S protein plays an essential role in the virus infection of SARS-CoV-2. S protein of SARS-CoV-2 which higher affinity than SARS-CoV, mediates entry into host cell through binding angiotensin-converting enzyme 2 (ACE2) and then primes through the serine protease TMPRSS2. After the viral entry into host cell, RNA-dependent RNA polymerase (RdRp, also known as nsp12) through binding co-factors nsp7 and nsp8 etc. catalyzes the synthesis of viral RNA. The At last, SARS-CoV-2 produces three virulence factors (Nsp1, Nsp3c and ORF7a) to interfere human immunity and assist immune escape. Recently, L. Zhang et al has revealed the crystal structure of SARS-CoV-2 main protease (Mpro, also called as 3CLpro) which is closely related with the reproduction of the virus. https://www.bocsci.com/products/sars-cov-2-3055.html
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Started by:
Karel De Pourcq
2020-10-26 12:41:30

Hi, I would like to know if there is a straightforward way to translate the one nomenclature to the other.
Both refer to genes/loci/protein, right... but if I have to compare to see coincidences from one list in one format and one list in the other (having hundreds of proteins/genes in each list), I can die doing searches and endless alignments, and still not accomplishing the job...
Thank you very much.
Started by:
Amir Tavassoli
2020-10-25 18:52:14

Hi
I need all of tomato reference and integrated maps such as "Integrated map: Yellow Stuffer X LA1589 and Sun1642 X LA1589".
But when I choose the map, I see "Server error" message.
Please let me know how can I get these maps.
Regards.
Started by:
Lukas Mueller
2020-10-25 14:54:27

This topic contains release notes for new SGN website features.
Started by:
Christian Chevalier
2020-10-25 12:15:48

This topics is for the researchers of the SOL community around the world who need some specific materials for their experiments and express some request to those who could provide them with the expected materials or resources.
Started by:
Masilo Charles
2020-10-25 08:32:27

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Started by:
Anais Merreta
2020-10-25 08:29:27

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Started by:
Sridhar Gutam
2020-10-25 08:25:24

Dear All,

I would like to work on phenotyping tomato and brinjal (egg plant) for abiotic stress tolerance traits. For that I would like to know what are the materials and methods needed.

Why I am asking is that if any one in the community had developed a set of protocols for low cost phenotyoing, i would like to use it.

Please connect me with people who are working on phenotyping tomato.

Thanks
Sridhar
Started by:
john binns
2020-10-25 03:44:44

This topic is for members of the SOL community from around the world to publish job openings. If interested, please reply directly to the poster. Job postings submitters please note that the postings will be removed by default 8 months after posting.
Started by:
optimus optimus
2020-10-25 03:22:16

Hi,
I am very confused browsing literature because I can not find a clear statement about the ploidy of N. benthamiana.
N. tabacum is clearly an allotetraploid, and tetraploid (2n = 4x = 48), with 4 copies of n=12. Genome size over 4.5 Gb, however,
N benthamiana it is reported to be an "ancient" allotetraploid, but currently it is n=19, and 38 total number of chromosomes, so it seems that from the ancient allotetraploid (48 chromosomes), genome fractionation has occurred and 38 remains, and that currently the genome is "diploid" (2n = 2x = 38). Is this correct?. Is N benthamiana diploid?.
Thank you very much.
Best regards,
Started by:
César Benavidez
2020-10-24 11:48:43

Dear friends, I am about to begin an investigation of lycopene content in tomato species, as well as identification of microsatellites to identify the gene or genes responsible for the character under study, so I ask if I could help with information on the research topic . Thank you very much
Started by:
Erwin Aragon
2020-10-24 07:06:53

Dears friends: I want to Know if Are there microsatellite or other molecular marker that can be used for identify differents species in tomato??? i mean between sculentum and
Started by:
Naama Menda
2020-10-24 04:08:52

This topic discusses issues in developing controlled-vocabularies for describing Solanaceae phenotypes and traits.
Most should be covered by the 'Solanaceae Phenotype Ontology' (SPO)
(see SGN->Tools->Ontology browser) which is growing by demand of its users community.
Terms which exist in other ontologies (PO, PATO, etc) are mapped to SPO terms.
In some cases it will be advised to use other vocabularies, instead of providing new SPO terms.
Started by:
Mark Johnson
2020-10-21 10:53:34

Dear Sol genomics network,

Shin-Han Shiu, Marja Timmermans, and I are organizing this summer's Cold Spring Harbor "Frontiers and Techniques in Plant Sciences" (June 27 - July 17).

The course provides foundational work in plant sciences as well as practical laboratory experience in techniques like RNA-seq, proteomics, mapping-by-sequencing, genome editing, and imaging. In recent years the course has stressed the quantitative nature of plant biology and students will be introduced to computational techniques required for analyzing large datasets.

As you may know, this course has been going strong for >30 years and has been taken by many successful plant scientists. I encourage you to let students, postdocs and faculty colleagues know about the course, which will be taught be a fantastic group of investigators http://meetings.cshl.edu/courses/2014/c-plan14.shtml.

CSH can provide limited financial support for US students to cover their tuition room and board through an NSF grant and other sources of funding. Thus, I strongly encourage you to consider sending your new students and/or post-docs to the course, which has had a very strong positive impact on the trajectory of participants.

APPLICATIONS ARE DUE APRIL 15.

Thank you,

Mark Johnson
Brown University
Started by:
sanjima pal
2020-10-19 04:11:02

I would like to know whether Triticum aestivum database is updated and is there any reference where I researchers have designed construct for VIGS in wheat
2020-10-18 11:35:54

Hi dears,
Is there any possibility that someone can share the cDNA library of benthamiana? Please let me know, if it is possible. Thanks.
Started by:
Emilio Ortiz
2020-10-18 06:06:57

Hi,

Thank you,
Started by:
Lukas Mueller
2020-10-18 03:21:48

In the next few years, hundreds of Solanaceae will be sequenced using next generation sequencing methods. If you intend to sequence a Solanaceae, please provide information on the species to avoid duplicate sequencing of accessions on the SGN SOL-100 page http://solgenomics.net/organism/sol100/view. This topic is for the discussion of SOL-100 related questions.
Started by:
Stephanie Riquelme
2020-10-11 13:40:52

Hello
I would like to access the potato annotation file in iTAG nomenclature with their respective TAIR nomenclature codes equivalent to each gene. Is that possible? I can not find the annotation file that includes that information. I need to match the nomenclature accepted in DAVID (The Database for Annotation).

Example in PGSC annotation available in Phytozome

PGSC0003DMG400000001 = AT1G12600.1
Started by:
Peng Wang
2020-09-24 03:38:34

Here we report a serious problem with tobacco gene models. We tried to map the gene models of Nitociana tabacum (TN90), which you provide in your ftp, to the TN90 genome assembly sequences. Unfortunately, a lot of gene models could not be mapped. Of the 122388 gene models you provided in the gene model file,only 53714 could be mapped to the genome assembly. We do not know what method you used to identify gene models. Could you check all the datasets of the three tobacco varieties(TN90, K326 and Bathma)? Thank you.
Started by:
Isaak Tecle
2020-09-06 09:19:34

Started by:
Lukas Mueller
2020-07-08 11:40:08

This topic contains release notes for new SGN data releases.
Started by:
Saurabh Gupta
2019-10-02 05:19:01

Is it safe to directly map the gene identifiers (Solyc00g005000.2) using the primary id (Solyc00g005000)?