Preserving Diversity, Insuring Our Future

ARS的新材料,留着,以后有点用,原文地址:http://www.ars.usda.gov/is/AR/archive/jan10/plant0110.htm

Plant Germplasm
Preserving Diversity, Insuring Our Future

Germplasm line derived from a wild African cotton species and located in College Station, Texas: Click here for photo caption.
Germplasm line derived from a wild African cotton species and located in College Station, Texas. 
(D1579-1)

If it were a museum, chances are it would be better known. But the U.S. National Plant Germplasm System (NPGS) is a vital network of genebanks where plants from around the world are curated, propagated, analyzed, and distributed for scientific use.

Most of the 511,000 samples, or accessions, of seeds, tissues, and whole plants are not on public display. They are kept at more than 20 Agricultural Research Servicegenebanks, many of which receive additional support from universities and state agricultural experiment stations.

The materials are available to researchers and educators globally, and as one of the most extensive collections of crop diversity in the world, NPGS plays an integral role in maintaining the U.S. and world supply of food, fiber, and other economic crops.

In addition to its vital role in today’s agricultural research, NPGS serves as a kind of insurance policy for providing the resources to meet challenges to U.S. and global agriculture presented by evolving pests, pathogens, and environmental changes. It also provides producers with the crop diversity necessary to keep up with changing markets.

Maintaining diverse collections of living plant materials from around the world is a daunting task. Different crops and the wild species related to them have different storage and propagation requirements. Seeds of many species can be stored by drying and freezing, whereas seeds of other species cannot survive such treatments. Many fruit crops and other species must be maintained as whole plants in the field or in protected greenhouses or screenhouses to maintain their health, disease-free status, and unique genetic nature.

A sample of the range of colors, shapes, sizes, and textures of cotton leaves, bolls, and seeds in the National Cotton Germplasm Collection: Click here for full photo caption.
A sample of the range of colors, shapes, sizes, and textures of cotton leaves, bolls, and seeds in the National Cotton Germplasm Collection. Colored cottons, such as the orange and tan ones on the left, are used to make dye-free clothing and are native to Central and South America. The red-colored cotton boll, shown on the right, deters insect feeding.  Sharply dissected leaves, such as those near the bottom, help keep the cotton canopy aerated and free of mold in humid climates. (D1581-1)

“We want to make sure we have a broad base for every important crop in the collection, from both a taxonomic and a geographic standpoint, so when the need arises, we have the necessary genetic tools available,” says Gary Kinard, research leader of the National Germplasm Resources Laboratory in Beltsville, Maryland, which coordinates efforts to acquire, document, and distribute NPGS materials.

ARS shares the materials free of charge with researchers and educators around the world. NPGS mailed 183,000 samples to users in the United States and more than 75 other countries in 2008. ARS researchers are using the collection for a wide range of purposes, such as addressing water shortages in California’s Central Valley, combating a nematode that costs U.S. cotton growers an estimated $100 million each year, and finding resistance to diseases and pests that threaten the existence of important crops.

The uses of the collection are practically infinite, so only a few examples are given here.

Scientific Value

In California, almond production is affected by water availability. In addition, newly planted almond orchards often experience replant disease, a syndrome caused by an antagonistic microbial community in the soil. Malli Aradhya, a geneticist at the National Clonal Germplasm Repository for Tree Fruit and Nut Crops and Grapes in Davis, California, is searching the ARS collection of almond species from Asia to identify new germplasm accessions with the genetic traits that help combat replant disease and improve drought tolerance.

In College Station, Texas, geneticist and curator of the National Cotton Germplasm Collection, inspects the variation in leaf shape and coloration among cotton lines: Click here for full photo caption.
In College Station, Texas, James Frelichowski, geneticist and curator of the National Cotton Germplasm Collection, inspects the variation in leaf shape and coloration among cotton lines.
(D1580-1)

Nematodes are microscopic worms that can sometimes destroy up to 50 percent of the cotton crop in fields from Texas to Florida. Plant pathologist Alois Bell and colleagues used an African species of cotton that resists the reniform nematode, a common pest, to help cotton growers address part of the nematode threat. By crossing and backcrossing resistance from the wild African species into specially developed hybrids, they developed lines that produce quality fiber and resist the reniform nematode. Bell and colleagues, who recently released the seed of two lines to breeders, originally obtained the African species from the National Cotton Germplasm Collection, which is part of the ARS Crop Germplasm Research Unit at College Station, Texas.

Maintaining the cotton collection isn’t easy. Cotton seeds must be regrown every 10 years, and there are 9,300 different accessions of cotton. Curator James Frelichowski must keep seeds at 4˚C (39˚F) and at 20–23 percent humidity. Under those conditions, seeds remain viable for at least 10 years. New plants are propagated at nurseries in College Station and in Tecoman, Mexico. (See “Freeze-Drying Is Key to Saving Fungal Collection” in this issue.) The Mexican nursery provides an extended growing season and a good site for cultivation of a wide assortment of cotton.

Worldwide Plant Explorations Enhance Collections

ARS has a long-running program, active since 1898, to acquire new samples for its collections. Each year, researchers conduct about 15 expeditions, coordinated by the Beltsville germplasm laboratory, to search for a range of crops and crop relatives with unique traits, such as drought tolerance and pest and pathogen resistance. Foreign explorations are conducted with collaboration from institutions in host countries. Aradhya, for instance, collected more than 145 new accessions of fruit and nut germplasm in trips to Azerbaijan in 2007 and 2008. Such trips can have long-range benefits. A peanut found in a Brazilian market in 1952 is a source for resistance to a wilt virus of U.S. peanuts. A wheat plant collected in Turkey in 1948 effectively resisted a fungal pathogen that emerged as a major threat 15 years later. Its genetics are now incorporated into virtually every wheat variety grown in the Pacific Northwest.

Tracking Requests

Most requests for materials are filed through the Germplasm Resources Information Network (GRIN), an online database (www.ars-grin.gov) that identifies and keeps track of every sample in the collection. Paul Red Elk, a Lakota Sioux youth counselor and educator, has been accessing the database for 6 years to acquire seeds of corn, beans, and onions to teach Native American children, ages 6 to 16, about their ancestral ways in Farmington, Minnesota. His program is designed to instill pride in at-risk children, in part by getting them involved in community gardening. He likes using the GRIN database because it provides accurate descriptions of the origins of the seeds and other materials in the collections.

The youth grow corn, beans, and squash in circular patterns and raise native grasses, wild onions, and wild garlic for soups and stews, as Native Americans once did.

“We try to teach them that this is the way people used to eat,” he says.—By Dennis O’Brien, Agricultural Research Service Information Staff.

Map: U.S. National Plant Germplasm System
This research is part of Plant Diseases (#303) and Plant Genetic Resources, Genomics, and Genetic Improvement (#301), two ARS national programs described at www.nps.ars.usda.gov.

To reach scientists mentioned in this article, contact Dennis O’Brien, USDA-ARS Information Staff, 5601 Sunnyside Ave., Beltsville, MD 20705-5129; (301) 540-1624.

Plant Germplasm: Preserving Diversity, Insuring Our Future” was published in the January 2010 issue ofAgricultural Research magazine.

其相关新闻稿,应该学习一下

ARS Plant Collections Help Safeguard Crops

(PhysOrg.com) — In the months ahead, Agricultural Research Service (ARS) scientists plan to collect walnuts from Kyrgyzstan, grasses from Russia, and carrots and sunflowers from fields across the Southeastern United States in efforts that will enhance one of the nation’s most effective tools for protecting the food supply.

Researchers will make the trips to collect plants with useful characteristics. The collected material will become part of the U.S. National Plant Germplasm System (NPGS), a network of gene banks that plays an integral role in preserving  that can be used to combat emerging pests, pathogens, diseases and other threats to the world’s supply of food and fiber.

The NPGS collections are made up of approximately 511,000 samples of seeds, tissues and whole plants kept at more than 20 ARS gene banks around the country. Many of the gene banks also receive support from universities and state agricultural experiment stations.

ARS scientists use collection materials for research and mail out thousands of samples of materials free of charge each year to researchers and educators in the United States and countries throughout the world.

ARS also funds approximately 15 expeditions every year to search for new samples of crops and crop relatives with unique traits, such as  and . The trips, coordinated by the ARS National Germplasm Resources Lab (NGRL) in Beltsville, Md., are conducted with collaboration from host countries and include benefits for these countries.

Useful traits in the samples added to the NPGS may be incorporated into crop cultivars, often many years later. For example, a peanut found in a Brazilian market in 1952 is a source for resistance to a wilt virus for most of the peanuts grown in the Southeastern United States and in many other nations. A wheat plant collected in Turkey in 1948 effectively resisted a  that emerged as a major threat 15 years later. Its genetics are now incorporated into virtually every wheat variety grown in the Pacific Northwest.

Requests for material are filed through the Germplasm Resources Information Network (GRIN), an online database (www.ars-grin.gov) that identifies and keeps track of every sample in the collection.

Read more about this and other ARS collections in the January 2010 issue of Agricultural Research magazine.

Provided by USDA Agricultural Research Service

GRIN-Global的一些情况

想写一篇各国作物种质资源信息系统发展情况的综述,看看大家都是什么水平、有什么货、货色怎么样,然后做一些横向的比较,以决定我们的以后怎么改进,于是就先上了美国的GRIN(Germplasm Resources Information Network),看到了他们的一篇论文,GRIN-Global: An International Project to Develop a Global Plant Genebank and Information Management System,才了解到现在他们有GRIN-Global这样一个项目。

GRIN-Global简称G-G,是USDA-ARS、Global Crop Diversity TrustBioversity International三家合作开发并计划全球部署的新一代开放源码的免费种质资源信息系统,采用Visual Studio 2008 Express开发,.net 3.5框架,数据库用Sql Server 2008 Express、Oracle Express或是Mysql/PostgreQL,还真是全免费了,哈哈,符合为发展中国家而设计的初衷。系统采用三层结构设计,数据层、业务层和表现层,使用Web Services实现表现层与业务层之间的松散耦合。系统可脱机运行也可联机运行,有中央数据库,本地数据库与中央数据库之间可以进行数据交换。因此,系统开发分成管理员工具和共享网站两部分,管理员工具可以实现脱机和联机对数据的操作。根据他们的时间表,整个系统将于明年年底前开发测试完毕并交付使用。资金上,总共是$2.3百万,TRUST好像给了$1.4百万,其余$90万就不知道是谁家给的了。

这个项目的设计与我对新CGRIS 的设计想法是基本一致的,我的设想是,建立一个全国范围内统一的作物种质资源信息系统,采用统一的标准和软件体系,标准我们已经制定了,系统在理论上是可以通过行政指令方式全国推行的,国家理应要对资源进行统一管理。系统采用基于Web Services的集中与分布式相结合的架构,有一个中央数据库,就设在我们这里,客户端有web和PC程序,共性的信息或全部信息汇交到中央数据库,客户端依据授权下载部分或全部数据。这是信息共享部分,而种质库管理部分,G-G似乎只有分发功能,我希望能囊括种质收集、引种、整理、鉴定、评价、保存、分发和利用的整个工作流程,全面实现种质资源工作的信息化。这个体系应该是十分的庞大了,因为我只是处于概念设计阶段,而没进入实质设计,困难可能比我想像的要大得多,这一点随后得到了印证。

我查看G-G的文档,并没有太多系统设计资料,有一个数据字典的草稿,以及GRIN的数据字典,不用想,基本上就是照搬GRIN的。我原来没怎么注意过美国人的这个东西,今天一看不得了了,人家做得真TM细致,我不由得汗颜,咱的工作做得太糙了。要把我们的数据结构完整设计出来,做细致了,这工作量相当大,问题也会很多,现在的标准和描述规范还得做修改才行。

我想,这今后三年就做这个工作算了,工作量肯定是算得上,创新性方面,原始创新肯定是没有,基本属于整合创新,够不够博士标准,还有待专家们考量了。

其实我一想,这三家凑在一起做这项工作,其目的一方面是帮助不发达国家管理好他们的资源,更重要的一个方面其实就是搞清楚使用该软件的国家有些什么资源,掌握其信息资源,想要实物的时候再去“拿”就方便了。也许我是小人之心了,不过这些组织是绝不会干什么亏本买卖的,打着促进共荣、保护地球的旗子抢资源,不过,极不发达国家的资源交给他们保存和开发,也没什么坏处,比被他们自己糟蹋了强。

下午我联系了一下Bioversity International东亚办公室的张宗文老师,他跟我说了一些情况,说7月份在泰国开过一个会,我猛的想起来老板跟我说过泰国有会,但他没说是跟这个有关啊,要不我就去了,呵呵。