scholarly journals Barkoding DNA pada Tumbuhan Durik-Durik (Syzygium sp.) Asal Riau Menggunakan Daerah Gen ndhF

2021 ◽  
Vol 11 (1) ◽  
pp. 41
Author(s):  
Dewi Indriyani Roslim ◽  
Ana Fitriani
Keyword(s):  
Amino Acids ◽  
Data Analysis ◽  
Dna Sequence ◽  
Genomic Dna ◽  
Dna Isolation ◽  
Dna Barcode ◽  
Agarose Gel ◽  
Total Dna ◽  
The One

(Article History: Received 11 November 2020; Revised 9 January 2021; Accepted 18 January 2021) ABSTRAKGen ndhF telah digunakan sebagai salah satu barkode DNA pada genus Syzygium karena divergensi urutan asam aminonya lebih besar empat kali dibandingkan rbcL. Penelitian ini bertujuan menganalisis sekuen DNA dari gen ndhF pada durik-durik (Syzygium sp.) asal Riau. Metode penelitian meliputi isolasi DNA total menggunakan kit isolasi DNA (Genomic DNA Mini Kit Plant, Geneaid), PCR, elektroforesis menggunakan 1% gel agarosa, sekuensing dan analisis data menggunakan program BioEdit versi 7, BLASTn dan MEGA 6.0. Sekuen DNA dari gen ndhF durik-durik telah diperoleh dengan ukuran 1370 pb dan memiliki kemiripan paling tinggi dengan yang dimiliki oleh S. malaccense (99,71%) dan paling rendah dengan S. acuminatissimum (98,69%). Terdapat 26 variasi nukleotida di antara aksesi yang diteliti dan dua diantaranya merupakan nukleotida kritis. Durik-durik membentuk satu kelompok dengan S. malaccense dan S. aromaticum. Namun demikian, nama spesies durik-durik belum dapat ditentukan karena tidak ada aksesi yang memiliki kemiripan 100% dengan durik-durik.Kata kunci: Barkode DNA, Danau Kajuik, durik-durik, gen ndhF, Syzygium. ABSTRACTThe ndhF gene has been used as DNA barcode in Syzygium because the divergence of the amino acids sequence is four times greater than rbcL. This study was to analyze the DNA sequence of ndhF gene on durik-durik (Syzygium sp.) origin Riau. Methods included total DNA isolation using Genomic DNA Mini Kit Plant (Geneaid), PCR, electrophoresis using 1% agarose gel, sequencing and data analysis using BioEdit, BLASTn dan MEGA 6.0 programs. The DNA sequence of durik-durik ndhF gene was 1370 bp in size and had the higher similarity to the one of S. malaccense (99.71%) and the lower similarity to the one of S. acuminatissimum (98.69%). There were 26 nucleotide variations and two of them were critical nucleotides. Durik-durik formed one group with S. malaccense dan S. aromaticum. Nevertheless, the species name of durik-durik still unknown because there is no accessions having 100% similarity to durik-durik.Keywords: DNA barcode, durik-durik, Kajuik Lake, ndhF gene, Syzygium.

scholarly journals Analisis Sekuens DNA Penyandi 18S rRNA pada Tumbuhan Cocor Bebek (Kalanchoe x laetivirens)

2021 ◽  
Vol 11 (2) ◽  
pp. 109
Author(s):  
Felly Andariyusti ◽  
Dewi Indriyani Roslim
Keyword(s):  
Dna Sequence ◽  
Internal Control ◽  
Genomic Dna ◽  
18S Rrna ◽  
Dna Isolation ◽  
Housekeeping Gene ◽  
Validation Process ◽  
Gene Expressions ◽  
Stress Studies ◽  
Total Dna

(Article History: Received January 16, 2021; Revised April 6, 2021; Accepted April 13, 2021) ABSTRAKStudi mengenai stress pada tumbuhan semakin banyak didasarkan pada ekspresi gen. Gen penyandi 18S rRNA merupakan salah satu anggota dari gen housekeeping yang umum digunakan sebagai kontrol internal. Penelitian ini bertujuan untuk menganalisis sekuens DNA penyandi 18S rRNA pada tumbuhan cocor bebek (K. x laetivirens). Metode penelitian meliputi ekstraksi DNA total dari daun segar menggunakan Mini Kit Genomic DNA Mini Kit Plant (Geneaid). Data sekuen DNA diolah menggunakan program BioEdit, BLASTn dan MEGA 6. Sekuen DNA parsial dari gen penyandi 18S rRNA K. x laetivirens telah diperoleh dengan ukuran 419pb. Sekuen tersebut memiliki kemiripan sebesar 99,28% dengan K. daigremontiana. Kalanchoe x laetivirens membentuk satu kelompok dengan sesama anggota dari famili Crassulaceae dan terpisah dari famili lainnya yang diteliti. Primer 18S rRNA spesifik terhadap cocor bebek telah dirancang, yaitu forward 5’- CAA ATT ACC CAA TCC TGA CA -3’ dan reverse 5’- CCA ACG TAA ATA GGA TCG AA -3’. Sekuen yang diperoleh pada penelitian ini berpotensi sebagai gen referensi setelah dilakukan validasi.Kata kunci: 18S rRNA; gen housekeeping; Kalanchoe x laetivirens; kontrol internal; PCR ABSTRACTPlant stress studies are based on gene expressions. This study aims to analyze the DNA sequence of 18S rRNA in cocor bebek (K. x laetivirens). Methods being out are total DNA isolation using Mini Kit Genomic DNA Mini Kit Plant (Geneaid). The DNA sequence was analyzed utilizing BioEdit, BLASTn and Mega 6 programs. Partial DNA sequence of 18S rRNA in K. x laetivirens has been obtained with 419 bp length. The DNA sequence has 99.28% similarity to K. daigremontiana. Kalanchoe x laetivirens formed one group with another species from the same family, Crassulaceae, based on the DNA sequence of 18S rRNA. A primer pair specific to K. x laetivirens for amplifying 18S rRNA has been designed such as forward 5’- CAA ATT ACC CAA TCC TGA CA -3’ and reverse 5’- CCA ACG TAA ATA GGA TCG AA -3’. This DNA sequence is potentially being employed as an internal control once the validation process completed.Keywords: 18S rRNA; housekeeping gene; internal control; Kalanchoe x laetivirens; PCR

scholarly journals Sekuen DNA Parsial Dari Gen GAPDH Pada Sirsak (Annona muricata L.)

2020 ◽  
Vol 13 (2) ◽  
pp. 209-217
Author(s):  
Dewi Indriyani Roslim ◽  
Hastini Asih ◽  
Herman Herman
Keyword(s):  
Polymerase Chain Reaction ◽  
Dna Sequence ◽  
Internal Control ◽  
Genomic Dna ◽  
Annona Muricata ◽  
Chain Reaction ◽  
Gapdh Gene ◽  
Gapdh Mrna ◽  
Total Dna ◽  
Polymerase Chain

AbstrakGen glyceraldehyde-3-phosphate dehydrogenase (GAPDH) merupakan salah satu gen referensi yang sering bertindak sebagai kontrol internal pada analisis ekspresi gen di beberapa spesies tumbuhan. Penelitian ini bertujuan menganalisis sekuen gen GAPDH parsial pada sirsak (Annona muricata L.). Metode meliputi persiapan sampel tanaman, isolasi DNA total menggunakan Genomic DNA mini kit Plant (Geneaid), amplifikasi gen GAPDH dengan teknik polymerase chain reaction (PCR), elektroforesis pada 1% gel agarose dan analisis data sekuen DNA. Studi ini telah memperoleh sekuen DNA dari gen GAPDH parsial sirsak sepanjang 961 pb. Sekuen tersebut memiliki kemiripan sekitar 68,93–84,35% dengan sekuen mRNA gen GAPDH pada beberapa spesies tumbuhan. Sekuen ini diprediksi terdiri dari 5 ekson dan 4 intron. Total ekson diprediksi terdiri dari 429 pb. Sekuen ini adalah yang pertama kali dilaporkan dari genus Annona dan juga dari famili Annonaceae. Sekuen ini dapat dimanfaatkan untuk analisis ekspresi gen pada sirsak dan dapat menjadi dasar untuk mengisolasi gen GAPDH spesies lain di dalam genus Annona dan famili Annonaceae. Abstract GAPDH (glyceraldehyde-3-phosphate dehydrogenase) gene is one of reference genes that is frequently became an internal control in any plant species. This study reports a DNA sequence of parsial GAPDH gene on soursop (Annona muricata L.). Methods included sample preparation, total DNA isolation using Genomic DNA mini kit Plant (Geneaid), amplification of GAPDH gene using PCR (polymerase chain reaction) technique, electrophoresis using 1% agarose gel and data analysis. This study had been obtained the DNA sequence of soursop partial GAPDH gene sizing 961 bp. The sequence had 68.93–84.35% similarity to GAPDH mRNA of some plants species. The soursop partial GAPDH gene was predicted consisting of 5 exons and 4 introns. The total exons length was 429 bp. The sequence is the first reported from Annona genus and also Annonaceae family. The sequence can be used for gene expression in soursop and also can be used to isolate GAPDH gene of other species in Annona genus and Annonaceae family.

scholarly journals Characterization of Cornus (Dogwood) Genotypes Using DNA Fingerprinting

1991 ◽  
Vol 116 (6) ◽  
pp. 1103-1107 ◽  
Author(s):  
John H. Culpepper ◽  
Luis A. Sayavedra-Soto ◽  
Brant J. Bassam ◽  
Peter M. Gresshoff
Keyword(s):  
North America ◽  
Dna Sequence ◽  
Genomic Dna ◽  
Geographical Area ◽  
Sequence Divergence ◽  
Species Level ◽  
Length Polymorphisms ◽  
Total Dna ◽  
Restriction Fragment Length

Several horticulturally important members of the genus Cornus were characterized at the DNA level to identify genotypes. Random genomic DNA fragments from Cornus florida L. `Barton' were cloned into pBR322 and λ Gem-11 and used to search for restriction fragment length polymorphisms (RFLPs) among C. sericea L., C. kousa Hance., and four cultivars of C. florida: `Barton', `Cherokee Princess', `Cloud 9', and `Mary Ellen'. Total DNA from these genotypes was restricted with several endonucleases (of which BamHI, EcoRI, and HindIII were used to search for RFLPs), vacuum-blotted onto nylon membranes, and probed with the C. florida `Barton' DNA clones. RFLPs were common among the Cornus species sericea, kousa, and florida, suggesting considerable DNA sequence divergence at the species level. RFLPs were less common among the cultivars of C. florida. These cultivars were selected from a narrow geographical area in North America from nursery-grown trees and exhibit much less DNA sequence divergence.

Research Regarding Content in Amino-acids and Biological Value of Proteins from Polyodon spathula Sturgeon Meat

2017 ◽  
Vol 68 (5) ◽  
pp. 1063-1069
Author(s):  
Cristina Simeanu ◽  
Daniel Simeanu ◽  
Anca Popa ◽  
Alexandru Usturoi ◽  
Dan Bodescu ◽  
...  
Keyword(s):  
Amino Acids ◽  
Nutritive Value ◽  
Essential Amino Acids ◽  
Meat Production ◽  
Age Group ◽  
Chemical Methods ◽  
Biological Value ◽  
Polyodon Spathula ◽  
The One ◽  
Total Amino Acids

Polyodon spathula sturgeon breed is successfully reared in Romania in many fishery farms for meat production and it is capitalized on domestic market as consumption fish. In the current paper were studied a number of 1400 sturgeons from Polyodon spathula breed (1200 individuals of one summer - P.s.0+ and 200 individuals of fourth summers - P.s.3+). From this flock were weighted around 10%, for each age group, and for laboratory determinations were chosen 10 fishes for each age with the corporal mass close to the group mean. After analysing the fillets gathered from the studied fishes for establishing the chemical characteristics, nutritive and biological values of proteins were drawn some interesting conclusions. So, regarding chemical composition we notice that in the meat of analysed fishes water is in a rate of 75.41% at P.s.3+ and 78.37% for P.s.0+; proteins - between 18.08% for P.s.0+ and 19.89% for P.s.3+, values which place those fishes in the group of protein fishes; lipids - between 2.45% and 3.45%, values which situated those sturgeons in category of fishes with a low content in lipids; collagen � 3.83% at P.s.0+ and 4.14% at P.s.3+ which indicate low values for proteins of weak quality in the meat of those sturgeons. Study of nutritive value for the analysed fishes indicate the fact that fishes P.s.0+ have a mediocre nutritive value, having the ratio w/p of 4.33 while sturgeons P.s.3+ were placed in the 2nd category � fishes with a good nutritive value (rate w/p = 3.79). Energetic value of the studied fillets was 97.39 kcal/100 g for P.s.0+ and 114.31 kcal/100 g for P.s.3+, which enlightened an increase of nutritive value with aging, fact especially due to accumulation of adipose tissue. Study of proteins quality, through the presence of those 8 essential amino-acids in the meat of analysed fishes, show the fact that at sturgeons P.s.0+ proportion of essential amino-acids was 20.88% from total amino-acids, while at sturgeons P.s.3+ was 26.23%, fact which enlightened an increasing of proteins� biological value with fish aging. This fact was also shown by calculation of proteins� biological value through chemical methods (EAA index); calculated value for sturgeons P.s.0+ was a little bit lower (118.73) than the one calculated for sturgeons P.s.3+ (118.79).

scholarly journals PSIV-21 Pellet processing reduces variability of corn soybean meal-based diet digestibility in growing pigs

2020 ◽  
Vol 98 (Supplement_3) ◽  
pp. 175-175
Author(s):  
Élisabeth Chassé ◽  
Frédéric Guay ◽  
Marie-Pierre Létourneau-Montminy
Keyword(s):  
Amino Acids ◽  
Soybean Meal ◽  
Crude Protein ◽  
Dry Matter ◽  
Crossover Design ◽  
Growing Pigs ◽  
Distal Ileum ◽  
Ileal Digestibility ◽  
Pelleted Diet ◽  
The One

Abstract This study was conducted to determine the effect of pelleting on the digestibility of corn-soybean meal-based diet in growing pigs. Two trials with 6 pigs cannulated at the distal ileum were conducted. In each trial, pigs were assigned to each treatment following a crossover design. In each experiment, the same diet, composed of corn and soybean meal with 10% wheat from two different feed mills, was served in pellet or mash form. Pelleting allowed an increase in digestibility in one of the trials. Apparent ileal digestibility (AID) of dry matter (DM), crude protein (CP) and digestible energy (DE) were improved with pelleting by 8, 12 and 9% (P< 0.01). The AID of amino acids (AA) was also improved (P< 0.05). Apparent total tract digestibility (ATTD) was increased by pelleting in DM, CP and DE by 5, 7 and 6% respectively (P< 0.01). The digestibility of the mash diet in experiment 1 was lower than in the pelleted diet in the experiment 1 and both diets in experiment 2 as shown by the interaction Pelleting X Trial which was significant for the AID and ATTD of DM, CP and DE (P< 0.01). Therefore, in experiment 1, pelleting allows to improve the digestibility of diet to the same level as in experiment 2. The AID of CP was higher by 37% in the mash diet from the second experiment compared to the one in the first experiment. Even though the same ingredients were chosen in the two experiments, this shows the variability in digestibility existing between different feed mills and ingredient sources. This difference was not observed in pelleted diets. The results obtained in these two trials show that pelleting can reduce the variability of digestibility and then give a good digestibility of diets even if the ingredients are of different quality or sources.

scholarly journals A Water-Soluble Copper-Immobilized Covalent Organic Framework Functioning as an “OFF–ON” Fluorescent Sensor for Amino Acids

2021 ◽  
Author(s):  
Lamiaa Reda Ahmed ◽  
Ahmed F. M. EL-Mahdy ◽  
Cheng-Tang Pan ◽  
Shiao-Wei Kuo
Keyword(s):  
Amino Acids ◽  
Fluorescent Sensor ◽  
Water Soluble ◽  
One Pot ◽  
Covalent Organic Framework ◽  
The One ◽  
Organic Framework

In this paper, we describe the construction of a new fluorescent hydroxyl- and hydrazone-based covalent organic framework (TFPB-DHTH COF) through the one-pot polycondensation of 1,3,5-tris(4-formylphenyl)benzene (TFPB) and 2,5-dihydroxyterephthalohydrazide (DHTH) under...

Natural Vulcanization Accelerators in Hevea Latex

1948 ◽  
Vol 21 (4) ◽  
pp. 853-859
Author(s):  
R. F. A. Altman
Keyword(s):  
Amino Acids ◽  
Experimental Results ◽  
The Other ◽  
Active Nitrogen ◽  
Nitrogen Bases ◽  
Other Hand ◽  
Decomposition Processes ◽  
Volatile Products ◽  
Nitrogenous Substances ◽  
The One

Abstract As numerous investigators have shown, some of the nonrubber components of Hevea latex have a decided accelerating action on the process of vulcanization. A survey of the literature on this subject points to the validity of certain general facts. 1. Among the nonrubber components of latex which have been investigated, certain nitrogenous bases appear to be most important for accelerating the rate of vulcanization. 2. These nitrogen bases apparently occur partly naturally in fresh latex, and partly as the result of putrefaction, heating, and other decomposition processes. 3. The nitrogen bases naturally present in fresh latex at later stages have been identified by Altman to be trigonelline, stachhydrine, betonicine, choline, methylamine, trimethylamine, and ammonia. These bases are markedly active in vulcanization, as will be seen in the section on experimental results. 4. The nitrogenous substances formed by the decomposition processes have only partly been identified, on the one hand as tetra- and pentamethylene diamine and some amino acids, on the other hand as alkaloids, proline, diamino acids, etc. 5. It has been generally accepted that these nitrogenous substances are derived from the proteins of the latex. 6. Decomposition appears to be connected with the formation of a considerable amount of acids. 7. The production of volatile nitrogen bases as a rule accompanies the decomposition processes. These volatile products have not been identified. 8. The active nitrogen bases, either already formed or derived from complex nitrogenous substances, seem to be soluble in water but only slightly soluble in acetone.

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