Bridging the Gap Between Biofuels and Biodiversity Through
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A Chromosome-Scale Assembly of Miscanthus Sinensis
1/23/2018 A chromosome-scale assembly allows genome-scale analysis A Chromosome-Scale Assembly • Genome assembly and annotation update of Miscanthus sinensis • Andropogoneae relatedness Therese Mitros University of California Berkeley • Miscanthus-specific duplication and ancestry • Miscanthus ancestry and introgression Miscanthus genome assembly is chromosome scale • A doubled-haploid accession of Miscanthus sinensis was created by Katarzyna Glowacka • Illumina sequencing to 110X depth • Illumina mate-pairs of 2kb, 5kb, fosmid-end • Chicago and HiC libraries from Dovetail Genomics • 2.079 GB assembled (11% gap) with 91% of genome assembly bases in the known 19 Miscanthus chromosomes HiC contact map Dovetail assembly agrees with genetic map RADseq markers from 3 M. ) sinensis maps and one M. sinensis cM ( x M. sacchariflorus map (H. Dong) Of 6377 64-mer markers from these maps genetic map 4298 map well to the M. sinensis DH1 assembly and validate the Dovetail assembly combined Miscanthus Miscanthus sequence assembly 1 1/23/2018 Annotation summary • 67,789 Genes, 11,489 with alternate transcripts • 53,312 show expression over 50% of their lengths • RNA-seq libraries from stem, root, and leaves sampled over multiple growing seasons • Small RNA over same time points • Available at phytozome • https://phytozome.jgi.doe.gov/pz/portal.html#!info?alias=Org_Msinensis_er Miscanthus duplication and retention relative Small RNA to Sorghum miRNA putative_miRNA 0.84% 0.14% 369 clusters miRBase annotated miRNA 61 clusters phasiRNA 43 clusters 1.21% -
Toward Improving Photosynthesis in Cassava: Characterizing Photosynthetic Limitations in Four Current African Cultivars
Received: 19 June 2017 | Revised: 16 February 2018 | Accepted: 20 February 2018 DOI: 10.1002/fes3.130 ORIGINAL RESEARCH Toward improving photosynthesis in cassava: Characterizing photosynthetic limitations in four current African cultivars Amanda P. De Souza1 | Stephen P. Long1,2 1Departments of Crop Sciences and Plant Biology, Carl R Woese Institute for Abstract Genomic Biology, University of Illinois at Despite the vast importance of cassava (Manihot esculenta Crantz) for smallholder Urbana-Champaign, Urbana, IL, USA farmers in Africa, yields per unit land area have not increased over the past 55 years. 2 Lancaster Environment Centre, Lancaster Genetic engineering or breeding for increased photosynthetic efficiency may repre- University, Lancaster, UK sent a new approach. This requires the understanding of limitations to photosynthesis Correspondence within existing germplasm. Here, leaf photosynthetic gas exchange, leaf carbon and Stephen P. Long, Departments of Crop nitrogen content, and nonstructural carbohydrates content and growth were analyzed Sciences and Plant Biology, Carl R Woese Institute for Genomic Biology, University in four high- yielding and farm- preferred African cultivars: two landraces (TME 7, of Illinois at Urbana-Champaign, Urbana, TME 419) and two improved lines (TMS 98/0581 and TMS 30572). Surprisingly, IL, USA. A Email: [email protected] the two landraces had, on average, 18% higher light-saturating leaf CO2 uptake ( sat) than the improved lines due to higher maximum apparent carboxylation rates of Funding information Bill and Melinda Gates Foundation, Grant/ Rubisco carboxylation (Vcmax) and regeneration of ribulose- 1,5- biphosphate ex- Award Number: OPP1060461 pressed as electron transport rate (Jmax). TME 419 also showed a greater intrinsic water use efficiency. -
Giant Miscanthus Establishment
Giant Miscanthus Establishment Introduction Giant Miscanthus (Miscanthus x giganteus), a warm-season perennial grass originating in Southeast Asia from two ornamental grasses, M. sacchariflorus and M. sinensis, is a popular candidate crop for biomass production in the Midwestern United States. This sterile hybrid is high yielding with many benefits to the land including soil stabilization and carbon sequestration. Vegetative propagation methods are necessary since giant Miscanthus does not produce viable seed. Field Preparation A giant Miscanthus stand first begins with field seedbed preparation. To provide good soil to rhizome contact, Figure 1. Rhizome segments. Photo credit: Heaton Lab. the seedbed should be tilled to a 3- to 5-inch depth. Soil moisture is critical to proper establishment for early stage time after the first frost in the fall and before the last one in germination. If working with dry land, prepare your field just the spring. If not immediately replanted in a new field, they prior to planting for optimal soil moisture. Good soil contact should be kept moist and cool (37-40º F) in storage. Ideal is also critical, so conversely, don’t till when the land is wet rhizomes have two to three visible buds, are light colored, and clods will form. Nutrient (NPK) and lime applications and firm (Fig. 1). Smaller rhizomes or those that are soft to should be made to the field as necessary before planting, the touch will likely have lower emergence. following typical corn recommendations for the area. Giant Miscanthus does not have high nutrient requirements once RHIZOME PLANTING established, but fields last for 20-30 years, so it is important Specialized rhizome planters are becoming available that adequate nutrition be present at establishment. -
Cassava Plant Guide
Plant Guide Food products: There are hydrocyanic glucosides CASSAVA (HCN) in all parts of the plant; these glucosides are Manihot esculenta Crantz removed by peeling the roots and boiling in water. Plant symbol = MAES The young tender leaves are used as a potherb, containing high levels of protein and vitamins C and Contributed by: USDA NRCS National Plant Data A. The leaves are prepared in a similar manner as Center spinach, while eliminating toxic compounds during the cooking process. Cassava flour is used to make cookies, quick breads, loaf breads, pancakes, doughnuts, dumplings, muffins, and bagels. Cassava extracted juice is fermented into a strong liquor called kasiri. It also can be concentrated and sweetened until it becomes dark viscous syrup called kasripo (casareep). This syrup has antiseptic properties and is used for flavoring. The peeled roots of the sweet variety are usually eaten cooked or baked. Livestock: Cassava leaves and stem meal are used for feeding dairy cattle. Both fresh and dried cassava roots are consumed by ruminants in different forms (chopped, sliced, or ground). Cassava bushes three to four months old are harvested as forage for cattle and other ruminants. Lincoln Moore. 2005 USDA NRCS Ornamental: One clone with variegated leaves is planted as an ornamental. Alternate Names Synonyms: Jatropha manihot L., Janipha manihot Commercial: Cassava starch is used in the production (L.) Kunth, Manihot utilissima Poh, Manihot aipi of paper, textiles, and as monosodium glutamate Poh, Manihot manihot (L.) Cockerell, Manihot (MSG), an important flavoring agent in Asian melanobasis Muell. Arg. cooking. In Africa, cassava is used as partial substitution for wheat flour. -
Bioresources.Com
PEER-REVIEWED ARTICLE bioresources.com Selected Grass Plants as Biomass Fuels and Raw Materials for Papermaking, Part II. Pulp and Paper Properties Dariusz Danielewicz,a,* Barbara Surma-Ślusarska,a Grzegorz Żurek,b Danuta Martyniak,b Magdalena Kmiotek,a and Katarzyna Dybka a The yield and kappa number of kraft pulps from tall wheatgrass, tall fescue, tall oatgrass, and Miscanthus were determined after pulping with 0.9% active alkali per 1% lignin content in raw materials. Fibre properties and test papers were also studied to evaluate the usefulness of these plants for papermaking. These results were compared with pulps prepared from birch and pine wood. Kraft pulps from the straws of grasses had yields similar to that of pulp from pine wood and lower kappa numbers than pulps from birch and pine wood. The tested pulps exhibited a favourable number of fibres in 1 g of pulp, and they resulted in papers with clearly differentiated properties from very resistant to rupture dense papers with very low air permeability, to less resistant to breaking more bulky papers. Keywords: Tall wheatgrass; Tall fescue; Tall oatgrass; Miscanthus giganteus; Kraft pulping; Properties of pulps Contact information: a: Fibrous Pulps Technology Division, Institute of Papermaking and Printing, Lodz University of Technology, 223 Wolczanska Street, 90-924 Lodz, Poland; b: Institute of Plant Breeding and Acclimatization, 5 Radzików Street, 05-870 Błonie, Poland; *Corresponding author: [email protected] (www.pulppaper.eu) INTRODUCTION The cultivation of tall wheatgrass (Elytrigia elongate), tall fescue (Festuca arundinacea), tall oatgrass (Arrhenatherum elatius), and Miscanthus × giganteus has recently begun in Poland. In Part I of this study, the yields of these crops per hectare of cultivation, their calorific value, and their chemical compositions were presented (Danielewicz et al. -
Chinese Tallow Tree (Triadica Sebifera)
THE WEEDY TRUTH ABOUT BIOFUELS TIM LOW & CAROL BOOTH Invasive Species Council October 2007 Title: The Weedy Truth About Biofuels Authors: Tim Low & Carol Booth Published by the Invasive Species Council, Melbourne October 2007 Updated March 2008 The INVASIVE SPECIES COUNCIL is a non-government organisation that works to protect the Australian environment from invasive pest species. Address: PO Box 166, Fairfield, Vic 3078 Email: [email protected] Website: www.invasives.org.au Further copies of this report can be obtained from the ISC website at www.invasives.org.au Cover photo: Spartina alterniflora, by the US Department of Agriculture CCOONNTTEENNTTSS Introduction ............................................................................................................................ 1 What are biofuels? ................................................................................................................ 2 The Biofuel industry .............................................................................................................. 4 The problems with biofuels ................................................................................................ 6 Social and economic issues ............................................................................................ 6 Greenhouse issues ............................................................................................................ 7 Biodiversity issues ........................................................................................................... -
What Makes Premium Cassava Flour Special?
2018 E-zine Coverage What Makes Premium Cassava Flour Special? Manufacturers of baked goods with the development of adopted starch manufacturing and snack foods differentiate delicious, high-quality baked technology and since produced in the crowded marketplace goods and snack foods. and sold only tapioca starch by offering specialty products and a number of them that speak to today’s FBN: What is cassava? continued to refer to this consumers’ wants and needs. new ingredient as tapioca Some of the most frequently Mr. Festejo: Cassava, also flour. Tapioca flour, or more requested products are those commonly known as yucca or appropriately, cassava flour, is with gluten-free, grain-free and manioc, is a perennial woody still produced and consumed non-GMO claims. shrub with an edible root that in tropical countries where the grows in tropical and subtropical cassava plant is indigenously Food Business News spoke with areas of the world. While many grown. However, the quality and Mel Festejo, COO of AKFP to food professionals are familiar characteristics of the flour are learn how Premium Cassava with and have used tapioca adapted only to native dishes Flour, alone or in a mix, assists starches and like derivatives, few in these countries. These local know that tapioca’s raw material cassava flours are not well is the root of the cassava plant. suited for use in gluten-free Tapioca or cassava starch is baked goods and snack foods. produced by the extraction of Our proprietary technology is only the starch component of making cassava flour a highly the root. Tapioca or cassava suitable functional, nutritional, flour, on the other hand, requires clean-label ingredient for gluten- the processing of the whole free and even grain-free baking peeled root. -
Bioresources.Com
PEER-REVIEWED ARTICLE bioresources.com PRODUCTION OF XYLO-OLIGOSACCHARIDES FROM MISCANTHUS x GIGANTEUS BY AUTOHYDROLYSIS Pablo Ligero,a Johannes C. van der Kolk,b Alberto de Vega,a,* and Jan E.G. van Dam b Xylo-oligosaccharides were obtained from Miscanthus x giganteus. The process was designed as a biorefinery scheme, which seeks the separation of the three main components: cellulose, hemicelluloses, and lignin. To extract the hemicelluloses, particularly xylans, in an efficient way, Miscanthus was subjected to autohydrolysis. The system was evaluated for the effects of temperature (160 to 200oC) and reaction time (15 to 60 min) on various parameters, reflecting the changes undergone during the process. The results showed that autohydrolysis is a suitable method for obtaining high yields of xylo-oligosaccharides, reaching values close to 65% of the dissolved xylans (based on the initial amount of potential xylose). Analysis of the process by using the severity factor (RO) allowed for the identification of a set of time-temperature values for which the fractionation was optimal. Keywords: Miscanthus x giganteus; Autohydrolysis; Xylo-oligosaccharides; Fractionation Contact information: a: Departament of Physical Chemistry and Chemical Engineering, Faculty of Sciences, University of A Coruña, Rúa da Fraga 10, 15004, A Coruña, Spain; b: Food and Biobased Research, Wageningen University and Research Centre, P.O. Box 17, 6700 AA Wageningen, The Netherlands; * Corresponding author: [email protected] INTRODUCTION Lignocellulosic biomass is considered to be a major source for ‘green’ chemicals, bio-fuels, and biobased products. Among the advantages of using lignocellulosic biomass can be mentioned that it is abundantly available around the world, non-competitive with food production, and it is a renewable and sustainable resource. -
Finger Millet"
Background on the development of the "Global strategy for the ex situ conservation of finger millet" The development of the strategy involved the following main steps: • The finger millet strategy was initiated in December, 2009 and discussions took place with international, regional and national partners through email discussions whereby a survey questionnaire was finalized for circulation. • Information and data were gathered using databases such as GENESYS (www.genesys- pgr.org), FAO-WIEWS (http://apps3.fao.org/wiews/wiews.jsp?i_l=EN), SINGER (http://singer.cgiar.org/), EURISCO (http://eurisco.ecpgr.org/) and GBIF); reports and other information resources on the holdings of finger millet genepools and additional inventory of collections. • Identification of major germplasm collections of finger millet based on information collected above were identified along with Institutes and their respective contact persons to undertake the survey. • Survey questionnaire was designed in consultation with experts and survey was undertaken to gather information on collections, content and status of conservation in January, 2011 and information was received from 56 countries across Asia, Africa, Europe and Americas. • After receiving information from the survey, a draft report was finalized and circulated to all the partners for their feedback. • The consultation meeting was organized on December 23, 2011 to discuss the draft report where participants from India, Kenya, Uganda, Mali, and Senegal participated. Based on their input, the final report was prepared for submission. Coordinator: Much of the development of the finger millet strategy was coordinated by Dr. P N Mathur ([email protected]), South Asia Coordinator at Bioversity International in consultation with Dr. -
Save and Grow: Cassava
Chapter 7 Harvest, post-harvest and value addition Food for the household, feed for livestock, and raw material for a wide array of value-added products, from coarse flour to high-tech starch gels – cassava is a truly multipurpose crop. Chapter 7: Harvest, Post-harvest and Value Addition 89 ne of the major positive attributes of cassava is that it does not have a specific harvesting period. Roots may be harvested any time be- tween six months and two years after planting. During periods of food shortage, they can be harvested Owhenever needed, often one plant – or even one root – at a time. For human consumption, harvesting usually takes place at about 8 to 10 months; for industrial uses, a longer growing period generally produces a higher root and starch yield. Once harvested, roots can be consumed directly by the farm household, fed to livestock or sold for processing into a wide array of value-added products, ranging from coarse flour to high-tech modified starch gels. The root is not the only part of the plant that can be put to good use. In Africa, cassava leaves are cooked as a vegetable. In many countries, the green part of the upper stem, including leaves and petioles, are fed to cattle and buffaloes, while the leaf-blades are fed to pigs and chickens. In China, Thailand and Viet Nam, fresh leaves are used for raising silkworms. Stumps are burned as fuelwood, and woody stems are ground-up and used as a substrate for growing mushrooms. Harvesting roots and plant tops Bringing home the harvest. -
The Study of Discrimination of Remotely Sensed Data for Designing the Separation Technique Between Cassava and Sugarcane Farmland
The Study of Discrimination of Remotely Sensed Data for Designing the Separation Technique between Cassava and Sugarcane Farmland Anuphao Aobpaet a and Soravis Supavetch Department of Civil Engineering, Kasetsart University, Bangkok, Thailand Keywords: Cassava, Sugarcane, Remote Sensing for Agriculture. Abstract: Cassava and sugarcane are the most important agricultural crops in Thailand. The cultivations of those are similarly in crop season, natural resources, and climate. For decades, the farmers usually switch their plant depending on unit price and government subsidy. The use of remote sensing data for monitoring change in farmland has encountered a problem on the similarity of vegetation index and the seasonal variation. In this work, we investigate the significant differences between cassava and sugarcane plantation by using satellite data from two sensors systems (Optical and SAR sensor) from Sentinel-1 and Sentinel-2 satellites. The result of the sampling fields of cassava shows the fluctuation of the growth and the mean of SAVI is slightly lower than sugarcane at the same age. SAVI values over the cassava farmland seem to approach the homogeneity of sugarcane when the age of more than 11 months. Thus, the difference between cassava and sugarcane farmland using this method should be investigated on the growth stage of the age between 4-9 months. For SAR polarization, the VV, VH of SAR backscatters have little difference in cassava and sugarcane. When compare the backscatters value of VV and VH from cassava and sugarcane, the sigma0 values in dB show that VV backscatters have a higher signal return. The variation of VH polarization of cassava and sugarcane seem difficult to identify due to the diversity of signal targets. -
Cassava System Cropping Guide
Cassava system cropping guide Stefan Hauser, Lydia Wairegi, Charles L. A. Asadu, Damian O. Asawalam, Grace Jokthan and Utiang Ugbe Africa Soil Health Consortium: Cassava cropping guide By Stefan Hauser (IITA), Lydia Wairegi (CABI), Charles L. A. Asadu (University of Nigeria), Damian O. Asawalam (MOUAU, Nigeria), Grace Jokthan (National Open University of Nigeria) and Utiang Ugbe (Development Input Limited, Nigeria) © CAB International 2014 Please cite this publication as: Hauser, S. et al. (2014) Cassava system cropping guide. Africa Soil Health Consortium, Nairobi. This publication is licensed under a Creative Commons Attribution 3.0 Unported License. Cover photo courtesy of Stefan Hauser (IITA): members of the farmer association at Mampu, Democratic Republic of Congo Creative Commons License: You are free: • to Share — to copy, distribute and transmit the work • to Remix — to adapt the work • to make commercial use of the work Under the following conditions: • Attribution — You must attribute the work in the manner speciied by the author or licensor (but not in any way that suggests that they endorse you or your use of the work). With the understanding that: • Waiver — Any of the above conditions can be waived if you get permission from the copyright holder. • Public Domain — Where the work or any of its elements is in the public domain under applicable law, that status is in no way affected by the license. • Other Rights — In no way are any of the following rights affected by the license: • Your fair dealing or fair use rights, or other applicable copyright exceptions and limitations; • The author’s moral rights; • Rights other persons may have either in the work itself or in how the work is used, such as publicity or privacy rights.