Feasibility assessment of phenotyping cotton fiber maturity using infrared spectroscopy and algorithms for genotyping analyses

[Background] Cotton fiber maturity is an important property that partially determines the processing and performance of cotton. Due to difficulties of obtaining fiber maturity values accurately from every plant of a genetic population, cotton geneticists often use micronaire (MIC) and/or lint percentage for classifying immature phenotypes from mature fiber phenotypes although they are complex fiber traits. The recent development of an algorithm for determining cotton fiber maturity (MIR) from Fourier transform infrared (FT-IR) spectra explores a novel way to measure fiber maturity efficiently and accurately. However, the algorithm has not been tested with a genetic population consisting of a large number of progeny plants.

[Results] The merits and limits of the MIC- or lint percentage-based phenotyping method were demonstrated by comparing the observed phenotypes with the predicted phenotypes based on their DNA marker genotypes in a genetic population consisting of 708 F2 plants with various fiber maturity. The observed MIC-based fiber phenotypes matched to the predicted phenotypes better than the observed lint percentage-based fiber phenotypes. The lint percentage was obtained from each of F2 plants, whereas the MIC values were unable to be obtained from the entire population since certain F2 plants produced insufficient fiber mass for their measurements. To test the feasibility of cotton fiber infrared maturity (MIR) as a viable phenotyping tool for genetic analyses, we measured FT-IR spectra from the second population composed of 80 F2 plants with various fiber maturities, determined MIR values using the algorithms, and compared them with their genotypes in addition to other fiber phenotypes. The results showed that MIR values were successfully obtained from each of the F2 plants, and the observed MIR-based phenotypes fit well to the predicted phenotypes based on their DNA marker genotypes as well as the observed phenotypes based on a combination of MIC and lint percentage.

[Conclusions] The MIR value obtained from FT-IR spectra of cotton fibers is able to accurately assess fiber maturity of all plants of a population in a quantitative way. The technique provides an option for cotton geneticists to determine fiber maturity rapidly and efficiently.

[Authors] KIM Hee Jin, LIU Yongliang, FANG David D. and DELHOM Christopher D.

Journal of Cotton Research2019; 2:8


A prospective for a New Leaf Grade by HVI

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Hazem Fouda1 and Mohamed Negm2

1Cotton Arbitration & Testing General Organization-CATGO, Alexandria- Egypt

2Cotton research institute, Giza-Egypt


Trash is a measure of the amount of non-lint materials in cotton, such


as leaf and bark from the cotton plant.The instruments work on two principles either gravimetric based i.e., Advanced Fiber Information System, “AFIS” or geometric or surface scanner, ” HVI”. The percentage of the surface area occupied by trash particles (percent area) and the number of trash visible (particle count) are calculated as well.

Trash area solely is not enough for determining leaf grade while a ratio between percent area of trash and trash particle count is a good indicator of the average particle size in a cotton sample. A low percent area combined with a high particle count indicates a smaller average particle size than does a high percent area with a low particle count.

The Aim of the work is: 1) to develop a formula contains both Trash Area and Trash Count measured by the HVI to be used for determining Leaf grade, 2) to develop a New Leaf Grade depending on the developed formula afore mentioned as the current Leaf Grade depends only on the HVI Trash Area reading which is obviously incorrect.

A high percent trash area with low count should result in better spinning mill processing while small trash area percent with high count (pepper trash) should result in bad spinning performance and high nep count in the yarn as they are difficult to remove from the cotton lint than large trash particles.

Leaf grade is a measure of the leaf content in cotton, this research has resulted in a new formula for a new leaf grade which includes both trash area percent and trash count which was in line with the classer’s grade giving samples with small trash particles lower grade than samples with big trash particles unlike the HVI current Leaf Grade.

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Comparison of HVI, AFIS and CCS Cotton Testing Method

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Mohamed A. Negm1 , Suzan H. Sanad1 and G. Kugler2 1Cotton Research Institute. Agric. Res. Center, Giza, Egypt. 2Textechno Herbert Stein- Mönchengladbach-Germany


Six Egyptian cotton varieties and two Upland cottons (Burkina Faso and Uzbekistan) based on a wide range of fiber properties i.e., fiber length, fiber strength, fiber elongation, short fiber content and micronaire reading measured by HVI, AFIS ” as High Volume Instrument” and new device Cotton Classification System (CCS-Textechno) “as Medium Volume Instrument” were analyzed and compared. The correlation among the three cotton testing methods was determined. The results indicated that both HVI, AFIS measurements were found to be comparable to the CCS except fiber elongation property.

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JCR-Cotton High Speed Phenotyping Thematic Series Call For Paper

Journal of Cotton Research

Cotton High Speed Phenotyping
Thematic Series Call For Paper
Coordinator: Professor Eric F. Hequet, Texas Tech University, USA; Dr. Glen Ritchie, Texas Tech University, USA

Author’s allowance: The sponsor, Institute of Cotton Research, CAAS, grants to cover not only APC for the submission, but also the author’s allowance once published.

High speed phenotyping is critical to improve cotton research and production. It can be applied to large scale commercial fields, research fields, breeding lines, and even at the individual plant level. The main goals are to improve yield, fiber quality, stress and disease resistance, etc… Recently, advances in high speed phenotyping in cotton have been achieved. The Journal of Cotton Research is hosting a thematic series on this topic. The research community is encouraged to share original findings, methodology, results, databases, and/or software and opinions.

Scopes that may be covered in the submissions may include, but are not limited to the following:
1. Platform design: air-based and/or land-based;
2. Data capture and processing: sensors (RGB, IR, multispectral, sonic, etc.), integration of multiple sensors, information processing technologies;
3. Data analysis and Metadata: analysis of very large data sets, validation with ground truth, practical application examples (breeding programs, site specific irrigation scheduling, etc.).

Submission Deadline: April 30, 2019


Cotton-innovation website

Cotton-innovation website:

A site dedicated to cotton innovations for West and Central Africa, an English version of this website is now available

Factsheets are available on innovations in the cotton supply chains, sustainability indicators for cotton farming systems (related to the SEEP report), economic information, etc.

Enjoy your visit.


HVI Guideline Updated

The ITMF International Committee on Cotton Testing Methods (ICCTM) approved updates to the Guideline for Standardized Instrument Testing of Cotton during its meeting in Bremen, Germany on March 18, 2014. The Guideline is a joint effort by the International Cotton Advisory Committee (ICAC) Task Force on Commercial Standardization of Instrument Testing of Cotton (CSITC) and the ICCTM.

The Guideline provides specific instruction on the conditioning of cotton samples, operation of instruments and instrument testing laboratories and the handling of data in the evaluation of the quality of cotton fiber. The purpose of the Guideline is to assure standardized testing procedures so as to ensure results that are accurate, precise and repeatable and are thus useable by the cotton and cotton textile value chains in both the marketing and use of cotton fiber.

The major changes approved at the ICCTM meeting in Bremen included updates to the basic ASTM reference documents, a recommendation that climate data in each laboratory be averaged over a maximum 5 to15 minute interval, cautionary guidance in the use of rapid conditioning equipment, requirements for the continuous identification of samples handled within laboratories, requirements regarding calibration material, information on within-instrument and inter-instrument variations, information about participation in CSITC Round Trials and recommendations regarding the handling of data by laboratories.

The new version of the Guideline will be available at www.ITMF.org and www.CSITC.org  from April 07 on. It will be translated into Arabic, Chinese, English, French, Portuguese, Russian and Spanish.

Is a modification of the temperature level in cotton testing laboratories suitable?

Cotton testing has to be done under specific climate conditions, which are given in the according standard practices (as ASTM 1776 or ISO 139). Particularly in countries with tropical conditions, it is very difficult and energy-intensive to maintain the required temperature level of 21°C, although temperature shows, compared to the influence of the relative humidity, a low impact on cotton test results – as long as the relative humidity is kept constant. Therefore the ITMF International Committee on Cotton Testing Methods (ICCTM) discussed during its meeting in Bremen, Germany on March 18, 2014, about the influence of temperature on the test results for cotton.

Whereas it is well known that the relative humidity shows a strong influence on cotton test results, the influence of the temperature is not as clear. The conclusions of the committee were:

a) Research should be done to check, if with a different temperature level (e.g. 24°C or even 27°C) the same test result level and the same accuracy of results can be achieved. Furthermore it has to be investigated, how the respective relative humidity has to be adapted – presumably on a level that results in the same moisture content of the cotton fibres as the currently given standard conditions (21°C / 65% relative humidity). At this stage, USDA-AMS, CSIRO in Australia and the Bremen Fibre Institute in Germany promised to investigate on this.

b) The allowed tolerance for temperature variations (1°C in ASTM 1776 or 2°C in ISO 139) should definitely not be widened, as this shows, with given constant total water content of the air, a direct impact on the relative humidity.

The results will be discussed at the next ICCTM meeting, which will take place in Bremen in March 2016.