The Effectiveness of Soil Extracts from Selangor Peat Swamp and Pristine Forest Soils on the Growth of Green Microalgae sp.

Microalgae are widely utilized in commercial industries. The addition of a modified artificial medium (soil extract) could enhance their growth. Soil extract collected from the Raja Musa peat swamp and mineral soil from the Ayer Hitam Forest Reserve (AHFR), Selangor, Malaysia, were treated using various extraction methods. Carteria radiosa PHG2-A01, Neochloris conjuncta, and Nephrochlamys subsolitaria were grown in microplates at 25 °C, light intensity 33.75 µmol photons m−2s−1 for 9 days. N. conjuncta dominated the growth in 121 °C twice extraction method AFHR samples, with 47.17% increment. The highest concentrations of ammonia and nitrate were detected in the medium with soil extract treated with 121 °C twice extraction method, yielding the concentrations of 2 mg NL−1 and 35 mg NL−1 for ammonia and nitrate of RM soil and 2 mg NL−1 and 2.85 mg NL−1 for the AH soil. These extracts are proved successful as a microalgal growth stimulant, increasing revenue and the need for enriched medium. The high rate of nutrient recovery has the potential to serve as a growth promoter for microalgae.

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Assessment of Aqueous Extraction Methods on Extractable Organic Matter and Hydrophobic/Hydrophilic Fractions of Virgin Forest Soils

Molecules ◽

10.3390/molecules26092480 ◽

2021 ◽

Vol 26 (9) ◽

pp. 2480

Author(s):

Wan Muhammad Ikram Wan Mohd Zamri ◽

Fridelina Sjahrir ◽

Nor Suhaila Yaacob ◽

Noor Fazreen Dzulkafli ◽

Mohd Fadzli Ahmad ◽

...

Keyword(s):

Organic Matter ◽

Forest Soils ◽

Extraction Methods ◽

Soil Extract ◽

Nitrate Content ◽

Soil Extraction ◽

Forest Reserve ◽

Soil Extracts ◽

Virgin Forest ◽

Extractable Organic Matter

The assessment of water-extractable organic matter using an autoclave can provide useful information on physical, chemical, and biological changes within the soil. The present study used virgin forest soils from Chini Forest Reserve, Langkawi Island, and Kenyir Forest Reserve (Malaysia), extracted using different extraction methods. The dissolved organic carbon (DOC), total dissolved nitrogen (TDN), total dissolved phosphorus (TDP), and ammonium-nitrate content were higher in the autoclave treatments, up to 3.0, 1.3, 1.2, and 1.4 times more than by natural extraction (extracted for 24 h at room temperature). Overall, the highest extractable DOC, TDN, TDP, ammonium and nitrate could be seen under autoclaved conditions 121 °C 2×, up to 146.74 mg C/L, 8.97 mg N/L, 0.23 mg P/L, 5.43 mg N mg/L and 3.47 N mg/L, respectively. The soil extracts became slightly acidic with a higher temperature and longer duration. Similar trends were observed in the humic and nonhumic substances, where different types of soil extract treatments influenced the concentrations of the fractions. Different soil extraction methods can provide further details, thus widening the application of soil extracts, especially in microbes.

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Kinetics Growth and Recovery of Valuable Nutrients from Selangor Peat Swamp and Pristine Forest Soils Using Different Extraction Methods as Potential Microalgae Growth Enhancers

Molecules ◽

10.3390/molecules26030653 ◽

2021 ◽

Vol 26 (3) ◽

pp. 653

Author(s):

Nor Suhaila Yaacob ◽

Mohd Fadzli Ahmad ◽

Nobuyuki Kawasaki ◽

Maegala Nallapan Maniyam ◽

Hasdianty Abdullah ◽

...

Keyword(s):

Synthetic Medium ◽

Extraction Methods ◽

Peninsular Malaysia ◽

Growth Promoter ◽

Forest Reserve ◽

Soil Extracts ◽

Dissolved Phosphorus ◽

Total Dissolved Nitrogen ◽

Medium Mass ◽

The Cost

Soil extracts are useful nutrients to enhance the growth of microalgae. Therefore, the present study attempts for the use of virgin soils from Peninsular Malaysia as growth enhancer. Soils collected from Raja Musa Forest Reserve (RMFR) and Ayer Hitam Forest Reserve (AHFR) were treated using different extraction methods. The total dissolved nitrogen (TDN), total dissolved phosphorus (TDP), and dissolved organic carbon (DOC) concentrations in the autoclave methods were relatively higher than natural extraction with up to 132.0 mg N/L, 10.7 mg P/L, and 2629 mg C/L, respectively for RMFR. The results of TDN, TDP, and DOC suggested that the best extraction methods are autoclaved at 121 °C twice with increasing 87%, 84%, and 95%, respectively. Chlorella vulgaris TRG 4C dominated the growth at 121 °C twice extraction method in the RMRF and AHRF samples, with increasing 54.3% and 14%, respectively. The specific growth rate (µ) of both microalgae were relatively higher, 0.23 d−1 in the Ayer Hitam Soil. This extract served well as a microalgal growth promoter, reducing the cost and the needs for synthetic medium. Mass production of microalgae as aquatic feed will be attempted eventually. The high recovery rate of nutrients has a huge potential to serve as a growth promoter for microalgae.

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Phylogeny of the Genus Synchytrium and the Development of TaqMan PCR Assay for Sensitive Detection of Synchytrium endobioticum in Soil

Phytopathology ◽

10.1094/phyto-05-13-0144-r ◽

2014 ◽

Vol 104 (4) ◽

pp. 422-432 ◽

Cited By ~ 20

Author(s):

Donna S. Smith ◽

Hélène Rocheleau ◽

Julie T. Chapados ◽

Cathryn Abbott ◽

Sharon Ribero ◽

...

Keyword(s):

Soil Extract ◽

Small Subunit ◽

High Rate ◽

Confirmatory Test ◽

Taqman Assay ◽

Economic Damage ◽

Soil Extracts ◽

Synchytrium Endobioticum ◽

Negative Results ◽

Rdna Sequences

Potato wart, caused by the fungal pathogen Synchytrium endobioticum, is a serious disease with the potential to cause significant economic damage. The small subunit (SSU) and internal transcribed spacer (ITS) ribosomal DNA (rDNA) were sequenced for several Synchytrium spp., showing a high rate of variability for both of these markers among the different species and monophyly of the genus within phylum Chytridiomycota. The intergenic nontranscribed spacer (IGS) of rDNA was sequenced for different pathotypes and showed no intraspecific variation within S. endobioticum, similar to the other rDNA markers from this study. To facilitate screening for the pathogen in soil, three TaqMan polymerase chain reaction (PCR) assays were developed from SSU, ITS, and IGS rDNA sequences to detect S. endobioticum sporangia in the chloroform-flotation fraction of sieved soil extracts. In the screening portion of the method, a first TaqMan assay targeting the SSU rDNA was developed with positive results that were further confirmed with amplicon melt analysis. A synthetic reaction control cloned into a plasmid was incorporated into the procedure, facilitating the validation of negative results. The presence of the reaction control did not adversely affect the efficiency of the SSU target amplification. A second TaqMan assay targeting the ITS-1 region was developed as a confirmatory test. There was 100% accordance between the SSU and ITS-1 TaqMan assays. Utilizing these two assays in tandem achieved good specificity for S. endobioticum, generating negative results with the cloned SSU and ITS-1 regions from all 14 other Synchytrium spp. considered. Spike recovery experiments indicated that these assays, targeting the SSU and ITS-1 rDNA regions, developed from a phylogeny dataset of the genus, could reliably detect a single sporangium in the chloroform flotation fraction of a soil extract. Good correlation between microscopic detection of sporangia and PCR results in both positive and negative soil samples was dually demonstrated for both the SSU and ITS-1 assays.

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Determination of cation exchange capacity and analysis of cation availability in hemic and sapric peat with different preparation and extraction methods

Ilmu Pertanian (Agricultural Science) ◽

10.22146/ipas.52411 ◽

2021 ◽

Vol 6 (1) ◽

pp. 47

Author(s):

Mirna Anriani Siregar ◽

Azwar Ma'as ◽

Makruf Nurudin

Keyword(s):

Cation Exchange ◽

Cation Exchange Capacity ◽

Extraction Method ◽

Soil Analysis ◽

Block Design ◽

Peat Soil ◽

Mineral Soil ◽

Extraction Methods ◽

Exchange Capacity ◽

Peat Soils

The use of mineral soil analysis procedures in peat soils is considered unsuitable. Peat soil is vulnerable to disturbance, which leads to the damage of peat inert structure, such as the sifting and drying process. The objective of this study was to obtain the proper methods of preparation and extraction to be used in peat soils that can reflect the conditions on field. The experiment was carried out in the laboratory of Soil Science Department UGM by using the peat soil samples taken from Padang Island, Riau, arranged in a factorial randomized block design with three factors (peat soil preparation, the extraction method, and the levelof peat maturity). The variables observed included the available cation and Cation Exchange Capacity (CEC) of the peat soil. The results showed that there was no significant effect of the treatment interactions on each variable observed. The preparation method for original soil at each level of peat maturity reflected more of the physical condition on the field more than other methods. Meanwhile, sapric peat showed significant effect on cations and CEC. After being converted to bulk density (BD) values at each level of peat maturity, the result of the leaching extraction method showed that the value of available cation and CEC that reflected more of the value on the field. The peat soil analysis method should be carried out without air drying and shaking extraction treatment for further research.

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Characterization of dissolved organic matter (DOM) extracted from soils by hot water percolation (HWP)

Agrokémia és Talajtan ◽

10.1556/agrokem.59.2010.1.12 ◽

2010 ◽

Vol 59 (1) ◽

pp. 99-108 ◽

Cited By ~ 3

Author(s):

M. Takács ◽

Gy. Füleky

Keyword(s):

Organic Matter ◽

Humic Acid ◽

Natural Organic Matter ◽

Extraction Methods ◽

Soil Samples ◽

Hot Water ◽

Soil Extracts ◽

Water Percolation ◽

Soil Humic Acid

The Hot Water Percolation (HWP) technique for preparing soil extracts has several advantages: it is easily carried out, fast, and several parameters can be measured from the same solution. The object of this study was to examine the possible use of HWP extracts for the characterization of soil organic matter. The HPLC-SEC chromatograms, UV-VIS and fluorescence properties of the HWP extracts were studied and the results were compared with those of the International Humic Substances Society (IHSS) Soil Humic Acid (HA), IHSS Soil Fulvic Acid (FA) and IHSS Suwannee Natural Organic Matter (NOM) standards as well as their HA counterparts isolated by traditional extraction methods from the original soil samples. The DOM of the HWP solution is probably a mixture of organic materials, which have some characteristics similar to the Soil FA fractions and NOM. The HWP extracted organic material can be studied and characterized using simple techniques, like UV-VIS and fluorescence spectroscopy.

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Evaluation of DNA Extraction Methods Developed for Forensic and Ancient DNA Applications Using Bone Samples of Different Age

Genes ◽

10.3390/genes12020146 ◽

2021 ◽

Vol 12 (2) ◽

pp. 146

Author(s):

Catarina Xavier ◽

Mayra Eduardoff ◽

Barbara Bertoglio ◽

Christina Amory ◽

Cordula Berger ◽

...

Keyword(s):

Dna Extraction ◽

Ancient Dna ◽

Extraction Method ◽

Fragment Size ◽

Molecular Genetic ◽

Extraction Methods ◽

Degraded Dna ◽

Size Analysis ◽

Dna Fragments ◽

Dna Amount

The efficient extraction of DNA from challenging samples, such as bones, is critical for the success of downstream genotyping analysis in molecular genetic disciplines. Even though the ancient DNA community has developed several protocols targeting small DNA fragments that are typically present in decomposed or old specimens, only recently forensic geneticists have started to adopt those protocols. Here, we compare an ancient DNA extraction protocol (Dabney) with a bone extraction method (Loreille) typically used in forensics. Real-time quantitative PCR and forensically representative typing methods including fragment size analysis and sequencing were used to assess protocol performance. We used four bone samples of different age in replicates to study the effects of both extraction methods. Our results confirm Loreille’s overall increased gain of DNA when enough tissue is available and Dabney’s improved efficiency for retrieving shorter DNA fragments that is beneficial when highly degraded DNA is present. The results suggest that the choice of extraction method needs to be based on available sample, degradation state, and targeted genotyping method. We modified the Dabney protocol by pooling parallel lysates prior to purification to study gain and performance in single tube typing assays and found that up to six parallel lysates lead to an almost linear gain of extracted DNA. These data are promising for further forensic investigations as the adapted Dabney protocol combines increased sensitivity for degraded DNA with necessary total DNA amount for forensic applications.

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Impact of Extraction Method on the Detection of Quality Biomarkers in Normal vs. DFD Meat

Foods ◽

10.3390/foods10051097 ◽

2021 ◽

Vol 10 (5) ◽

pp. 1097

Author(s):

Laura González-Blanco ◽

Yolanda Diñeiro ◽

Andrea Díaz-Luis ◽

Ana Coto-Montes ◽

Mamen Oliván ◽

...

Keyword(s):

Extraction Method ◽

Protein Pattern ◽

Stress Protein ◽

Electrophoretic Pattern ◽

Extraction Methods ◽

Sds Page ◽

Weight Protein ◽

Triton X ◽

Protein Extractability ◽

Selection Of

The objective of this work was to demonstrate how the extraction method affects the reliability of biomarker detection and how this detection depends on the biomarker location within the cell compartment. Different extraction methods were used to study the sarcoplasmic and myofibrillar fractions of the Longissimus thoracis et lumborum muscle of young bulls of the Asturiana de los Valles breed in two quality grades, standard (Control) or dark, firm, and dry (DFD) meat. Protein extractability and the expression of some of the main meat quality biomarkers—oxidative status (lipoperoxidation (LPO) and catalase activity (CAT)), proteome (SDS-PAGE electrophoretic pattern), and cell stress protein (Hsp70)—were analyzed. In the sarcoplasmic fraction, buffers containing Triton X-100 showed significantly higher protein extractability, LPO, and higher intensity of high-molecular-weight protein bands, whereas the TES buffer was more sensitive to distinguishing differences in the protein pattern between the Control and DFD meat. In the myofibrillar fraction, samples extracted with the lysis buffer showed significantly higher protein extractability, whereas samples extracted with the non-denaturing buffer showed higher results for LPO, CAT, and Hsp70, and higher-intensity bands in the electrophoretic pattern. These findings highlight the need for the careful selection of the extraction method used to analyze the different biomarkers considering their cellular location to adapt the extractive process.

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Integrated Metabolomics and Transcriptomics Using an Optimised Dual Extraction Process to Study Human Brain Cancer Cells and Tissues

Metabolites ◽

10.3390/metabo11040240 ◽

2021 ◽

Vol 11 (4) ◽

pp. 240

Author(s):

Alison Woodward ◽

Alina Pandele ◽

Salah Abdelrazig ◽

Catherine A. Ortori ◽

Iqbal Khan ◽

...

Keyword(s):

Metabolic Pathways ◽

Extraction Method ◽

Limit Of Detection ◽

Rna Extraction ◽

Extraction Process ◽

Extraction Methods ◽

Serum Starvation ◽

Extraction Techniques ◽

Metabolic Genes ◽

Dual Extraction

The integration of untargeted metabolomics and transcriptomics from the same population of cells or tissue enhances the confidence in the identified metabolic pathways and understanding of the enzyme–metabolite relationship. Here, we optimised a simultaneous extraction method of metabolites/lipids and RNA from ependymoma cells (BXD-1425). Relative to established RNA (mirVana kit) or metabolite (sequential solvent addition and shaking) single extraction methods, four dual-extraction techniques were evaluated and compared (methanol:water:chloroform ratios): cryomill/mirVana (1:1:2); cryomill-wash/Econospin (5:1:2); rotation/phenol-chloroform (9:10:1); Sequential/mirVana (1:1:3). All methods extracted the same metabolites, yet rotation/phenol-chloroform did not extract lipids. Cryomill/mirVana and sequential/mirVana recovered the highest amounts of RNA, at 70 and 68% of that recovered with mirVana kit alone. sequential/mirVana, involving RNA extraction from the interphase of our established sequential solvent addition and shaking metabolomics-lipidomics extraction method, was the most efficient approach overall. Sequential/mirVana was applied to study a) the biological effect caused by acute serum starvation in BXD-1425 cells and b) primary ependymoma tumour tissue. We found (a) 64 differentially abundant metabolites and 28 differentially expressed metabolic genes, discovering four gene-metabolite interactions, and (b) all metabolites and 62% lipids were above the limit of detection, and RNA yield was sufficient for transcriptomics, in just 10 mg of tissue.

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A Structural Analysis Based Feature Extraction Method for OCR System For Myanmar Printed Document Images

International Journal of Computer Vision and Image Processing ◽

10.4018/ijcvip.2012010102 ◽

2012 ◽

Vol 2 (1) ◽

pp. 16-41 ◽

Cited By ~ 1

Author(s):

Htwe Pa Pa Win ◽

Phyo Thu Thu Khine ◽

Khin Nwe Ni Tun

Keyword(s):

Feature Extraction ◽

Structural Analysis ◽

Character Recognition ◽

Optical Character Recognition ◽

Extraction Method ◽

Recognition Performance ◽

Extraction Methods ◽

Support Vector ◽

Svm Classifier ◽

Feature Extraction Method

This paper proposes a new feature extraction method for off-line recognition of Myanmar printed documents. One of the most important factors to achieve high recognition performance in Optical Character Recognition (OCR) system is the selection of the feature extraction methods. Different types of existing OCR systems used various feature extraction methods because of the diversity of the scripts’ natures. One major contribution of the work in this paper is the design of logically rigorous coding based features. To show the effectiveness of the proposed method, this paper assumed the documents are successfully segmented into characters and extracted features from these isolated Myanmar characters. These features are extracted using structural analysis of the Myanmar scripts. The experimental results have been carried out using the Support Vector Machine (SVM) classifier and compare the pervious proposed feature extraction method.

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Compositional Analysis and Aroma Evaluation of Feijoa Essential Oils from New Zealand Grown Cultivars

Molecules ◽

10.3390/molecules24112053 ◽

2019 ◽

Vol 24 (11) ◽

pp. 2053 ◽

Cited By ~ 2

Author(s):

Yaoyao Peng ◽

Karen Suzanne Bishop ◽

Siew Young Quek

Keyword(s):

New Zealand ◽

Essential Oil ◽

Essential Oils ◽

Extraction Method ◽

Compositional Analysis ◽

Extraction Methods ◽

Essential Oil Composition ◽

Oil Composition ◽

Active Compounds ◽

Initial Comparison

Feijoa is an aromatic fruit and the essential oil from feijoa peel could be a valuable by-product in the juicing industry. An initial comparison of the essential oil extraction methods, steam-distillation and hydro-distillation, was conducted. The volatile compounds in the essential oils from four feijoa cultivars were identified and semi-quantified by GC-MS and the aroma active compounds in each essential oil were characterized using SPME-GC-O-MS. Hydro-distillation, with a material to water ratio of 1:4 and an extraction time of 90 min, was the optimized extraction method for feijoa essential oil. The Wiki Tu cultivar produced the highest essential oil yield among the four selected cultivars. A total of 160 compounds were detected, among which 90 compounds were reported for the first time in feijoa essential oils. Terpenes and esters were dominant compounds in feijoa essential oil composition and were also major contributors to feijoa essential oil aroma. Key aroma active compounds in feijoa essential oils were α-terpineol, ethyl benzoate, (Z)-3-hexenyl hexanoate, linalool, (E)-geraniol, 2-undecanone, 3-octanone, α-cubebene, and germacrene D. This is the first report on the optimization of the extraction method and the establishment of the aroma profile of feijoa essential oils, with a comparison of four New Zealand grown cultivars.

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